Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr9
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 48574783
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2023350 characters in sequence are not A, C, G, or T
File 84 of 135
Found at i:32517919 original size:31 final size:30
Alignment explanation
Indices: 32517867--32517925 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 30
32517857 TCACCAAAGG
* *
32517867 TTTTATTTTTTCTTTCTTTTTAATATATAA
1 TTTTATTTTTTCTTTCATTTTAACATATAA
32517897 TTTTATTATTTTCTCTT-ATTTTAACATAT
1 TTTTATT-TTTTCT-TTCATTTTAACATAT
32517926 TTCTTGATGT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 7 0.28
31 16 0.64
32 2 0.08
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (30 bp):
TTTTATTTTTTCTTTCATTTTAACATATAA
Found at i:32521325 original size:15 final size:15
Alignment explanation
Indices: 32521305--32521343 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
32521295 GCACCGCCCG
*
32521305 AAACCGTTACTGCCA
1 AAACCGCTACTGCCA
*
32521320 AAACCGCTACTGCCG
1 AAACCGCTACTGCCA
32521335 AAACCGCTA
1 AAACCGCTA
32521344 TTATATTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.33, C:0.36, G:0.15, T:0.15
Consensus pattern (15 bp):
AAACCGCTACTGCCA
Found at i:32523422 original size:21 final size:22
Alignment explanation
Indices: 32523398--32523439 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
32523388 ACCCCAAATT
* *
32523398 AAAAATCCCTAAAA-CGAAAAC
1 AAAAACCCCCAAAACCGAAAAC
32523419 AAAAACCCCCAAAACCGAAAA
1 AAAAACCCCCAAAACCGAAAA
32523440 AGAAATTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.62, C:0.29, G:0.05, T:0.05
Consensus pattern (22 bp):
AAAAACCCCCAAAACCGAAAAC
Found at i:32527239 original size:2 final size:2
Alignment explanation
Indices: 32527232--32527258 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
32527222 AATGAAATAC
32527232 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
32527259 TTGAACTTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:32530690 original size:19 final size:21
Alignment explanation
Indices: 32530654--32530703 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
32530644 AATTTAACAT
*
32530654 AAATATTTATTATGAATTATA
1 AAATATTTAATATGAATTATA
32530675 AAAT-TTTAATAT-AATTATA
1 AAATATTTAATATGAATTATA
*
32530694 TAATATTTAA
1 AAATATTTAA
32530704 AATACATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 10 0.38
20 12 0.46
21 4 0.15
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (21 bp):
AAATATTTAATATGAATTATA
Found at i:32530761 original size:3 final size:3
Alignment explanation
Indices: 32530753--32530795 Score: 61
Period size: 3 Copynumber: 14.7 Consensus size: 3
32530743 ATATTTTAAA
* *
32530753 TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT TAT CAT TA- TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
32530796 CTTAATTAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:32533411 original size:63 final size:65
Alignment explanation
Indices: 32533306--32533428 Score: 160
Period size: 64 Copynumber: 1.9 Consensus size: 65
32533296 ATATATAATA
*
32533306 TATAATTTATTAACAAACTAAACAATCAAACTATAAACATATA-TGAAAAATATTTAAATGTACG
1 TATAATTTAGTAACAAACTAAACAATCAAACTATAAACATATAGTGAAAAATATTTAAATGTACG
* * * * * *
32533370 TATAATTTAGTAAGAAATTAAA-AATGAGACTATAAATATATATGTGAAAGATATTTAAA
1 TATAATTTAGTAACAAACTAAACAATCAAACTATAAACATATA-GTGAAAAATATTTAAA
32533429 AAATGATGAT
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
63 17 0.34
64 19 0.38
65 14 0.28
ACGTcount: A:0.53, C:0.07, G:0.08, T:0.33
Consensus pattern (65 bp):
TATAATTTAGTAACAAACTAAACAATCAAACTATAAACATATAGTGAAAAATATTTAAATGTACG
Found at i:32543271 original size:30 final size:30
Alignment explanation
Indices: 32543238--32543406 Score: 159
Period size: 30 Copynumber: 5.7 Consensus size: 30
32543228 AATTTTTTTG
* *
32543238 CATTTTGACCCTTAAACTTTTCTAAAATTG
1 CATTTTGACCCCTAAACTTTTCTAAAATTA
32543268 CATTTTGACCCCTAAAC-TTTCTCAAAATTA
1 CATTTTGACCCCTAAACTTTTCT-AAAATTA
* ** * *
32543298 CAGTTCAACCCTTAAAAATTTT-T-AAATTA
1 CATTTTGACCCCT-AAACTTTTCTAAAATTA
* *
32543327 CATTTTAACCCCTAAACTTTT-AAAAATTA
1 CATTTTGACCCCTAAACTTTTCTAAAATTA
32543356 CATTTTGACCCCTAAAC-TTTCTTAAAATTA
1 CATTTTGACCCCTAAACTTTTC-TAAAATTA
* * * *
32543386 CGTTTTGGCCCCAAAAGTTTT
1 CATTTTGACCCCTAAACTTTT
32543407 GCTGCCATTA
Statistics
Matches: 114, Mismatches: 18, Indels: 13
0.79 0.12 0.09
Matches are distributed among these distances:
28 10 0.09
29 43 0.38
30 51 0.45
31 7 0.06
32 3 0.03
ACGTcount: A:0.34, C:0.22, G:0.05, T:0.39
Consensus pattern (30 bp):
CATTTTGACCCCTAAACTTTTCTAAAATTA
Found at i:32543309 original size:29 final size:27
Alignment explanation
Indices: 32543245--32543386 Score: 86
Period size: 29 Copynumber: 4.8 Consensus size: 27
32543235 TTGCATTTTG
* *
32543245 ACCCTTAAACTTTTCTAAAATTGCATTTTGA
1 ACCC-TAAAC-TTT-TAAAATTACA-TTTCA
* *
32543276 CCCCTAAACTTTCTCAAAATTACAGTTCA
1 ACCCTAAACTTT-T-AAAATTACATTTCA
* * *
32543305 ACCCTTAAAAATTTTTAAATTACATTTTA
1 ACCC-T-AAACTTTTAAAATTACATTTCA
*
32543334 ACCCCTAAACTTTTAAAAATTACATTTTGA
1 A-CCCTAAACTTTT-AAAATTACA-TTTCA
*
32543364 CCCCTAAACTTTCTTAAAATTAC
1 ACCCTAAAC-TT-TTAAAATTAC
32543387 GTTTTGGCCC
Statistics
Matches: 90, Mismatches: 13, Indels: 17
0.75 0.11 0.14
Matches are distributed among these distances:
28 7 0.08
29 40 0.44
30 32 0.36
31 11 0.12
ACGTcount: A:0.37, C:0.23, G:0.03, T:0.38
Consensus pattern (27 bp):
ACCCTAAACTTTTAAAATTACATTTCA
Found at i:32543338 original size:59 final size:59
Alignment explanation
Indices: 32543245--32543357 Score: 158
Period size: 59 Copynumber: 1.9 Consensus size: 59
32543235 TTGCATTTTG
* * * *
32543245 ACCCTTAAACTTTTCTAAAATTGCATTTTGACCCCTAAACTTTCTCAAAATTACAGTTCA
1 ACCCTTAAAATTTTCTAAAATTACATTTTAACCCCTAAACTTT-TAAAAATTACAGTTCA
32543305 ACCCTTAAAAATTTT-T-AAATTACATTTTAACCCCTAAACTTTTAAAAATTACA
1 ACCCTT-AAAATTTTCTAAAATTACATTTTAACCCCTAAACTTTTAAAAATTACA
32543358 TTTTGACCCC
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
58 10 0.21
59 24 0.50
60 7 0.15
61 7 0.15
ACGTcount: A:0.38, C:0.22, G:0.03, T:0.37
Consensus pattern (59 bp):
ACCCTTAAAATTTTCTAAAATTACATTTTAACCCCTAAACTTTTAAAAATTACAGTTCA
Found at i:32543890 original size:4 final size:4
Alignment explanation
Indices: 32543881--32543941 Score: 71
Period size: 4 Copynumber: 16.5 Consensus size: 4
32543871 GCTGATCGGA
32543881 AAAG AAAG AAAG AAAG -AA- AAAG AGAAG AAAG AAAG AAAG -AAG -AAG
1 AAAG AAAG AAAG AAAG AAAG AAAG A-AAG AAAG AAAG AAAG AAAG AAAG
32543926 -AAG AAAG -AAG AAAG AA
1 AAAG AAAG AAAG AAAG AA
32543942 GAGGGAAAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 10
0.84 0.00 0.16
Matches are distributed among these distances:
3 16 0.31
4 32 0.62
5 4 0.08
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:32543908 original size:23 final size:22
Alignment explanation
Indices: 32543882--32543941 Score: 88
Period size: 23 Copynumber: 2.8 Consensus size: 22
32543872 CTGATCGGAA
32543882 AAGAAAGAAAGAAAGAAAAAGAG
1 AAGAAAGAAAGAAAGAAAAA-AG
*
32543905 AAGAAAGAAAGAAAG-AAGAAG
1 AAGAAAGAAAGAAAGAAAAAAG
32543926 AAGAAAG-AAGAAAGAA
1 AAGAAAGAAAGAAAGAA
32543942 GAGGGAAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
20 7 0.20
21 10 0.29
22 3 0.09
23 15 0.43
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (22 bp):
AAGAAAGAAAGAAAGAAAAAAG
Found at i:32543923 original size:7 final size:7
Alignment explanation
Indices: 32543882--32543943 Score: 81
Period size: 7 Copynumber: 8.6 Consensus size: 7
32543872 CTGATCGGAA
32543882 AAGAAAG
1 AAGAAAG
32543889 AAAGAAAG
1 -AAGAAAG
*
32543897 AAAAAGAG
1 AAGAA-AG
32543905 AAGAAAG
1 AAGAAAG
32543912 AAAGAAAG
1 -AAGAAAG
32543920 AAG-AAG
1 AAGAAAG
32543926 AAGAAAG
1 AAGAAAG
32543933 AAGAAAG
1 AAGAAAG
32543940 AAGA
1 AAGA
32543944 GGGAAAAAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 7
0.84 0.03 0.12
Matches are distributed among these distances:
6 6 0.12
7 23 0.47
8 20 0.41
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (7 bp):
AAGAAAG
Found at i:32544284 original size:22 final size:22
Alignment explanation
Indices: 32544253--32544297 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 22
32544243 CCAGCCCAGC
*
32544253 AGAAAAAAAAGAGAAAGGAAAAA
1 AGAAAAAAAAAAG-AAGGAAAAA
32544276 AGAAAAAAAAAAGAAGGAAAAA
1 AGAAAAAAAAAAGAAGGAAAAA
32544298 TGGTTCAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (22 bp):
AGAAAAAAAAAAGAAGGAAAAA
Found at i:32544480 original size:5 final size:5
Alignment explanation
Indices: 32544462--32544499 Score: 51
Period size: 5 Copynumber: 7.8 Consensus size: 5
32544452 CTTTTTCGTA
* *
32544462 TTTAT ATTA- TTTAT ATTAT TTTAT TTTAT TTTAT TTTA
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTA
32544500 ATCAATTTCA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
4 3 0.11
5 25 0.89
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (5 bp):
TTTAT
Found at i:32544780 original size:17 final size:17
Alignment explanation
Indices: 32544760--32544949 Score: 89
Period size: 17 Copynumber: 10.7 Consensus size: 17
32544750 AAAAAAAATT
32544760 GTGTTTCAAAAATTTTC
1 GTGTTTCAAAAATTTTC
*
32544777 GTGTTTAAAAAAATTTCTC
1 GTGTTT-CAAAAATTT-TC
*
32544796 GTGTTTCAAAAATTTCCTT
1 GTGTTTCAAAAATTT--TC
* * **
32544815 GTTTTTTTAAAAAAAAATTC
1 G--TGTTT-CAAAAATTTTC
* * *
32544835 CTATTTTAAAAAATTCTT-
1 GT-GTTTCAAAAATT-TTC
* *
32544853 ATGTTTCAAAAATCTTC
1 GTGTTTCAAAAATTTTC
* *
32544870 GTGTTTTC-AAAATTCTA
1 GTG-TTTCAAAAATTTTC
*
32544887 GTGTTTCAAAAATTTAC
1 GTGTTTCAAAAATTTTC
* *
32544904 GTGTTTTCAACAATTCTC
1 GTG-TTTCAAAAATTTTC
* *
32544922 GTTTTTCACAAATTTTC
1 GTGTTTCAAAAATTTTC
*
32544939 GCGTTT-AAAAA
1 GTGTTTCAAAAA
32544950 AAAATCTGGT
Statistics
Matches: 129, Mismatches: 32, Indels: 25
0.69 0.17 0.13
Matches are distributed among these distances:
16 10 0.08
17 50 0.39
18 41 0.32
19 17 0.13
20 1 0.01
21 4 0.03
22 6 0.05
ACGTcount: A:0.33, C:0.13, G:0.09, T:0.45
Consensus pattern (17 bp):
GTGTTTCAAAAATTTTC
Found at i:32544808 original size:18 final size:18
Alignment explanation
Indices: 32544760--32545070 Score: 89
Period size: 18 Copynumber: 17.3 Consensus size: 18
32544750 AAAAAAAATT
32544760 GTGTTTCAAAAATTT-TC
1 GTGTTTCAAAAATTTCTC
*
32544777 GTGTTTAAAAAAATTTCTC
1 GTGTTT-CAAAAATTTCTC
*
32544796 GTGTTTCAAAAATTTCCTT
1 GTGTTTCAAAAATTT-CTC
* * *
32544815 GTTTTTTTAAAAAAAAATTC-C
1 G--TGTTT--CAAAAATTTCTC
* * * *
32544836 -TATTTTAAAAAATTCTT
1 GTGTTTCAAAAATTTCTC
* *
32544853 ATGTTTCAAAAATCT-TC
1 GTGTTTCAAAAATTTCTC
*
32544870 GTGTTTTC-AAAA-TTCTA
1 GTG-TTTCAAAAATTTCTC
*
32544887 GTGTTTCAAAAATTT-AC
1 GTGTTTCAAAAATTTCTC
*
32544904 GTGTTTTCAACAA-TTCTC
1 GTG-TTTCAAAAATTTCTC
* *
32544922 GTTTTTCACAAATTT-TC
1 GTGTTTCAAAAATTTCTC
* * ** *
32544939 GCGTTTAAAAAAAAATCTG
1 GTGTTT-CAAAAATTTCTC
** *
32544958 GT-TTTCAAAAAAAAAATCGC
1 GTGTTTC---AAAAATTTCTC
*
32544978 GTGTTTC-AAAATTGTCTT
1 GTGTTTCAAAAATT-TCTC
32544996 GT-TTTCAAAAATTT-TC
1 GTGTTTCAAAAATTTCTC
* *
32545012 GTGTTTTTAAGAATTAT-T-
1 GTG-TTTCAAAAATT-TCTC
*
32545030 GTGTCTT--TAAATTTCTC
1 GTGT-TTCAAAAATTTCTC
* *
32545047 GTGTTTTAAAAATTTTTC
1 GTGTTTCAAAAATTTCTC
32545065 GTGTTT
1 GTGTTT
32545071 TTCAAAGAAA
Statistics
Matches: 215, Mismatches: 47, Indels: 63
0.66 0.14 0.19
Matches are distributed among these distances:
15 1 0.00
16 24 0.11
17 53 0.25
18 95 0.44
19 15 0.07
20 11 0.05
21 8 0.04
22 1 0.00
23 7 0.03
ACGTcount: A:0.32, C:0.12, G:0.11, T:0.46
Consensus pattern (18 bp):
GTGTTTCAAAAATTTCTC
Found at i:32544847 original size:16 final size:17
Alignment explanation
Indices: 32544826--32544865 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
32544816 TTTTTTTAAA
32544826 AAAAAATTCCTAT-TTT
1 AAAAAATTCCTATGTTT
*
32544842 AAAAAATTCTTATGTTT
1 AAAAAATTCCTATGTTT
*
32544859 CAAAAAT
1 AAAAAAT
32544866 CTTCGTGTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 12 0.57
17 9 0.43
ACGTcount: A:0.47, C:0.10, G:0.03, T:0.40
Consensus pattern (17 bp):
AAAAAATTCCTATGTTT
Found at i:32544868 original size:16 final size:16
Alignment explanation
Indices: 32544843--32544899 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 16
32544833 TCCTATTTTA
32544843 AAAAATTCTTATGTTTC
1 AAAAA-TCTTATGTTTC
*
32544860 AAAAATCTTCGTGTTTTC
1 AAAAATCTT-ATG-TTTC
*
32544878 AAAATTC-TAGTGTTTC
1 AAAAATCTTA-TGTTTC
32544894 AAAAAT
1 AAAAAT
32544900 TTACGTGTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
16 13 0.39
17 10 0.30
18 10 0.30
ACGTcount: A:0.37, C:0.12, G:0.09, T:0.42
Consensus pattern (16 bp):
AAAAATCTTATGTTTC
Found at i:32544907 original size:34 final size:33
Alignment explanation
Indices: 32544844--32544936 Score: 116
Period size: 34 Copynumber: 2.7 Consensus size: 33
32544834 CCTATTTTAA
32544844 AAAATTCTTA-TGTTTCAAAAATCTTCGTGTTTTC
1 AAAATTC-TAGTGTTTCAAAAAT-TTCGTGTTTTC
32544878 AAAATTCTAGTGTTTCAAAAATTTACGTGTTTTC
1 AAAATTCTAGTGTTTCAAAAATTT-CGTGTTTTC
* * *
32544912 AACAATTCTCGTTTTTCACAAATTT
1 AA-AATTCTAGTGTTTCAAAAATTT
32544937 TCGCGTTTAA
Statistics
Matches: 53, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
33 4 0.08
34 30 0.57
35 19 0.36
ACGTcount: A:0.31, C:0.15, G:0.09, T:0.45
Consensus pattern (33 bp):
AAAATTCTAGTGTTTCAAAAATTTCGTGTTTTC
Found at i:32544968 original size:20 final size:21
Alignment explanation
Indices: 32544945--32544988 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 21
32544935 TTTCGCGTTT
32544945 AAAAAAAAATCTG-GT-TTTCA
1 AAAAAAAAATC-GCGTGTTTCA
32544965 AAAAAAAAATCGCGTGTTTCA
1 AAAAAAAAATCGCGTGTTTCA
32544986 AAA
1 AAA
32544989 TTGTCTTGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 1 0.05
20 13 0.59
21 8 0.36
ACGTcount: A:0.52, C:0.11, G:0.11, T:0.25
Consensus pattern (21 bp):
AAAAAAAAATCGCGTGTTTCA
Found at i:32545015 original size:34 final size:33
Alignment explanation
Indices: 32544856--32545017 Score: 85
Period size: 34 Copynumber: 4.6 Consensus size: 33
32544846 AATTCTTATG
* *
32544856 TTTCAAAAATCTTCGTGTTTTCAAAA-TTCTAGT
1 TTTCAAAAATTTTCGTG-TTTCAAAATTTCTTGT
* *
32544889 GTTTCAAAAATTTACGTGTTTTCAACAA-TTCTCGTT
1 -TTTCAAAAATTTTCGTG-TTTCAA-AATTTCTTG-T
* * * ** *
32544925 TTTCACAAATTTTCGCGTTTAAAAAAAAATCTGGT
1 TTTCAAAAATTTTCGTGTTT--CAAAATTTCTTGT
* **
32544960 TTTCAAAAAAAAAATCGCGTGTTTCAAAATTGTCTTGT
1 TTTC----AAAAATTTTCGTGTTTCAAAATT-TCTTGT
32544998 TTTCAAAAATTTTCGTGTTT
1 TTTCAAAAATTTTCGTGTTT
32545018 TTAAGAATTA
Statistics
Matches: 97, Mismatches: 21, Indels: 20
0.70 0.15 0.14
Matches are distributed among these distances:
34 38 0.39
35 28 0.29
36 7 0.07
37 4 0.04
38 9 0.09
39 11 0.11
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.43
Consensus pattern (33 bp):
TTTCAAAAATTTTCGTGTTTCAAAATTTCTTGT
Found at i:32545109 original size:37 final size:38
Alignment explanation
Indices: 32545048--32545119 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 38
32545038 AAATTTCTCG
* * * *
32545048 TGTTTTAAAAATTTTTCGTGTTTTTCAAAGAAAATAAT
1 TGTTTCAAAAATTCTTCGTGTTTTTAAAAAAAAATAAT
32545086 TGTTTCAAAAA-TCTTCGTGTTTTTAAAAAAAAAT
1 TGTTTCAAAAATTCTTCGTGTTTTTAAAAAAAAAT
32545120 TCGTATTTTG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
37 20 0.67
38 10 0.33
ACGTcount: A:0.39, C:0.07, G:0.10, T:0.44
Consensus pattern (38 bp):
TGTTTCAAAAATTCTTCGTGTTTTTAAAAAAAAATAAT
Found at i:32545113 original size:18 final size:18
Alignment explanation
Indices: 32544995--32545114 Score: 50
Period size: 18 Copynumber: 6.7 Consensus size: 18
32544985 AAAATTGTCT
* *
32544995 TGTTTTCAAAAATTTTCG
1 TGTTTTTAAAAATCTTCG
* *
32545013 TGTTTTTAAGAAT-TATTG
1 TGTTTTTAAAAATCT-TCG
* **
32545031 TGTCTTTAAATTTC-TCG
1 TGTTTTTAAAAATCTTCG
*
32545048 TG-TTTTAAAAATTTTTCG
1 TGTTTTTAAAAA-TCTTCG
** ***
32545066 TGTTTTTCAAAGAAAATAAT
1 TGTTTTT-AAA-AATCTTCG
*
32545086 TG-TTTCAAAAATCTTCG
1 TGTTTTTAAAAATCTTCG
32545103 TGTTTTTAAAAA
1 TGTTTTTAAAAA
32545115 AAAATTCGTA
Statistics
Matches: 70, Mismatches: 24, Indels: 16
0.64 0.22 0.15
Matches are distributed among these distances:
16 6 0.09
17 11 0.16
18 38 0.54
19 7 0.10
20 6 0.09
21 2 0.03
ACGTcount: A:0.31, C:0.08, G:0.12, T:0.49
Consensus pattern (18 bp):
TGTTTTTAAAAATCTTCG
Found at i:32548056 original size:12 final size:12
Alignment explanation
Indices: 32548039--32548065 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
32548029 AAACAATAAA
32548039 AACCAAACATAG
1 AACCAAACATAG
32548051 AACCAAACATAG
1 AACCAAACATAG
32548063 AAC
1 AAC
32548066 GAAAAATGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.59, C:0.26, G:0.07, T:0.07
Consensus pattern (12 bp):
AACCAAACATAG
Found at i:32548504 original size:4 final size:4
Alignment explanation
Indices: 32548497--32548546 Score: 64
Period size: 4 Copynumber: 11.8 Consensus size: 4
32548487 CAAAATAAAT
*
32548497 ATTA ATTA ATTA ATTA ATTA ATTTA ATTA ATTA AGTTAA ATAA ATTA ATT
1 ATTA ATTA ATTA ATTA ATTA A-TTA ATTA ATTA A-TT-A ATTA ATTA ATT
32548547 TCTCAATTAA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
4 32 0.78
5 7 0.17
6 2 0.05
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (4 bp):
ATTA
Found at i:32548524 original size:13 final size:13
Alignment explanation
Indices: 32548497--32548547 Score: 68
Period size: 13 Copynumber: 3.9 Consensus size: 13
32548487 CAAAATAAAT
32548497 ATTAATTAA-TTA
1 ATTAATTAATTTA
32548509 ATTAATTAATTTA
1 ATTAATTAATTTA
*
32548522 ATTAATTAAGTTAA
1 ATTAATTAA-TTTA
*
32548536 ATAAATTAATTT
1 ATTAATTAATTT
32548548 CTCAATTAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
12 9 0.26
13 14 0.41
14 11 0.32
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (13 bp):
ATTAATTAATTTA
Found at i:32548563 original size:16 final size:18
Alignment explanation
Indices: 32548537--32548569 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
32548527 TTAAGTTAAA
32548537 TAAATTAA-TTTCTCAAT
1 TAAATTAATTTTCTCAAT
32548554 TAAA-TAATTTTCTCAA
1 TAAATTAATTTTCTCAA
32548570 CCCAATTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.45
Consensus pattern (18 bp):
TAAATTAATTTTCTCAAT
Found at i:32548710 original size:14 final size:13
Alignment explanation
Indices: 32548665--32548717 Score: 52
Period size: 14 Copynumber: 3.8 Consensus size: 13
32548655 TCATAATGAC
32548665 TAATTAATTTAATT
1 TAATT-ATTTAATT
* *
32548679 TAATTTTCTTACTT
1 TAATTAT-TTAATT
32548693 TAATTATTTAATT
1 TAATTATTTAATT
*
32548706 ATAATTAATTAA
1 -TAATTATTTAA
32548718 ATAATAATTT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
13 6 0.19
14 26 0.81
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.57
Consensus pattern (13 bp):
TAATTATTTAATT
Found at i:32555028 original size:19 final size:19
Alignment explanation
Indices: 32555004--32555064 Score: 122
Period size: 19 Copynumber: 3.2 Consensus size: 19
32554994 CAGACCACAT
32555004 GGGCGTGTGAGTGGGCCCA
1 GGGCGTGTGAGTGGGCCCA
32555023 GGGCGTGTGAGTGGGCCCA
1 GGGCGTGTGAGTGGGCCCA
32555042 GGGCGTGTGAGTGGGCCCA
1 GGGCGTGTGAGTGGGCCCA
32555061 GGGC
1 GGGC
32555065 TACTTTAACT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 42 1.00
ACGTcount: A:0.10, C:0.21, G:0.54, T:0.15
Consensus pattern (19 bp):
GGGCGTGTGAGTGGGCCCA
Found at i:32569454 original size:14 final size:14
Alignment explanation
Indices: 32569437--32569508 Score: 51
Period size: 14 Copynumber: 5.3 Consensus size: 14
32569427 TTATTTATGG
*
32569437 TTTATTATTTAGTA
1 TTTAGTATTTAGTA
* *
32569451 TTTA--AATTAATA
1 TTTAGTATTTAGTA
*
32569463 TTTAAG-ATTTAGAA
1 TTT-AGTATTTAGTA
* *
32569477 TTTAGAATTTAGAA
1 TTTAGTATTTAGTA
*
32569491 TTTAGTATTTAATA
1 TTTAGTATTTAGTA
32569505 TTTA
1 TTTA
32569509 AATTTTAGCT
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
12 9 0.19
13 3 0.06
14 35 0.74
ACGTcount: A:0.39, C:0.00, G:0.08, T:0.53
Consensus pattern (14 bp):
TTTAGTATTTAGTA
Found at i:32569516 original size:21 final size:20
Alignment explanation
Indices: 32569457--32569513 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 20
32569447 AGTATTTAAA
*
32569457 TTAATATTTAAGATTTAGAAT
1 TTAATATTTAA-ATTTAGTAT
32569478 TTAGA-ATTTAGAATTTAGTAT
1 TTA-ATATTTA-AATTTAGTAT
32569499 TTAATATTTAAATTT
1 TTAATATTTAAATTT
32569514 TAGCTATTAG
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
20 6 0.19
21 24 0.75
22 2 0.06
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (20 bp):
TTAATATTTAAATTTAGTAT
Found at i:32570835 original size:20 final size:21
Alignment explanation
Indices: 32570810--32570848 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
32570800 TCAAATACTC
32570810 GAAATA-CA-ATTTATATATAT
1 GAAATATCAGATTTA-ATATAT
32570830 GAAATATCAGATTTAATAT
1 GAAATATCAGATTTAATAT
32570849 TTGATGATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 6 0.35
21 6 0.35
22 5 0.29
ACGTcount: A:0.49, C:0.05, G:0.08, T:0.38
Consensus pattern (21 bp):
GAAATATCAGATTTAATATAT
Found at i:32575865 original size:302 final size:307
Alignment explanation
Indices: 32575431--32576106 Score: 1028
Period size: 307 Copynumber: 2.2 Consensus size: 307
32575421 NNNNNNNNNN
* * *
32575431 AAGTAAT-AAATGCGGAGAAAAAAATACGAACAAAGGGCCGAAGTAAGGGTTTTTTACTAAATTT
1 AAGTAATAAAATTCGG-GAAAAAAATACGAACAAAGGGCCGAAATAA-GGATTTTTACTAAATTT
* * *
32575495 AAAAAAAAAAATAGAAATAATTAATACATTTCAAATATAATGTACTAAGATAAAGTAAAATTATA
64 AAAAAAAAAAAT----ATAATTAAAACATTTCAAACATAATGTACTAAGATAAAGTAAAATAATA
** * *
32575560 AAATATGAAAATAATATATTTTTATTGAAAGTAATAAAAATCGGG-AAAAAATACGAGTAAAGGG
125 AAATACAAAAATAATATATTTTTATTGAAACTAATAAAAATCGGGAAAAAAATACGAGCAAAGGG
32575624 -TCGAAATAAGG-GTTTTTT-TAAATTTATTTAAAAAACACACTAAATTTATTTAAATTTCAAAC
190 ATC-AAATAAGGTGTTTTTTATAAATTTATTTAAAAAACACACTAAATTTATTTAAATTTCAAAC
*
32575686 ATAATGTACTAAAATAATGTAAAATAATAAAATTAGAAAATA-GTATATTTTTTA
254 ATAATGTACTAAAATAATGTAAAATAATAAAATTAAAAAATATG-ATATTTTTTA
32575740 AAGTAATAAAATTCGGGAAAAAAATACGAACAAAGGGCCGAAATAAGTG-TTTTTACTAAA-TTA
1 AAGTAATAAAATTCGGGAAAAAAATACGAACAAAGGGCCGAAATAAG-GATTTTTACTAAATTTA
* *
32575803 AAAAAAACAAT-TAATTAAAACATTTTAAACATAATGTACTAAGATAAAGTAAAATAATAAAATA
65 AAAAAAAAAATATAATTAAAACATTTCAAACATAATGTACTAAGATAAAGTAAAATAATAAAATA
*
32575867 CAAAAATAATATATTTTTATTGAAACTAATAAAATTCGGGAAAAAAAATACGAGCAAAGGGATCA
130 CAAAAATAATATATTTTTATTGAAACTAATAAAAATCGGG-AAAAAAATACGAGCAAAGGGATCA
* *
32575932 AATAAGGTTTTTTTTTATAAATTTATTTAAAAAATACACTAAATTTATTTAAATTTCAAACATAA
194 AATAAGG-TGTTTTTTATAAATTTATTTAAAAAACACACTAAATTTATTTAAATTTCAAACATAA
32575997 TGTACTAAAATAATGTAAAATAATAAAATTAAAAAATATGATATTTTTTA
258 TGTACTAAAATAATGTAAAATAATAAAATTAAAAAATATGATATTTTTTA
*
32576047 AAGTAATAAAATTCGGGAAAAAAATACGAACAAATGGCCGAAATAAAGGATTTTTACTAA
1 AAGTAATAAAATTCGGGAAAAAAATACGAACAAAGGGCCGAAAT-AAGGATTTTTACTAA
32576107 TTTTTTTTTG
Statistics
Matches: 340, Mismatches: 16, Indels: 23
0.90 0.04 0.06
Matches are distributed among these distances:
302 85 0.25
304 26 0.08
305 2 0.01
306 6 0.02
307 151 0.44
308 26 0.08
309 37 0.11
310 7 0.02
ACGTcount: A:0.52, C:0.07, G:0.11, T:0.30
Consensus pattern (307 bp):
AAGTAATAAAATTCGGGAAAAAAATACGAACAAAGGGCCGAAATAAGGATTTTTACTAAATTTAA
AAAAAAAAATATAATTAAAACATTTCAAACATAATGTACTAAGATAAAGTAAAATAATAAAATAC
AAAAATAATATATTTTTATTGAAACTAATAAAAATCGGGAAAAAAATACGAGCAAAGGGATCAAA
TAAGGTGTTTTTTATAAATTTATTTAAAAAACACACTAAATTTATTTAAATTTCAAACATAATGT
ACTAAAATAATGTAAAATAATAAAATTAAAAAATATGATATTTTTTA
Found at i:32578266 original size:77 final size:79
Alignment explanation
Indices: 32578165--32578332 Score: 250
Period size: 83 Copynumber: 2.1 Consensus size: 79
32578155 AATTTATTGC
* * *
32578165 ACTTTTAATACCTTGATTTGGATACAA-TT-TAAGCATAAGCATAAGCTGAATAATTTTAATTAT
1 ACTTTTTATAACTTAATTTGGATACAATTTATAAGCATAAGCATAAGCTGAATAATTTTAATTAT
32578228 TCCAAATGAATTAT
66 TCCAAATGAATTAT
*
32578242 ATTTTTTATAACTTAATTTGGATACAATTTAAGCATAAGCATAAGCATAAGCTGAATAATTTTAA
1 ACTTTTTATAACTTAATTTGGATACAATTT----ATAAGCATAAGCATAAGCTGAATAATTTTAA
32578307 TTATTCCAAATGAATTAT
62 TTATTCCAAATGAATTAT
32578325 ACTTTTTA
1 ACTTTTTA
32578333 CAACATTACA
Statistics
Matches: 80, Mismatches: 5, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
77 23 0.29
78 2 0.03
83 55 0.69
ACGTcount: A:0.39, C:0.11, G:0.10, T:0.40
Consensus pattern (79 bp):
ACTTTTTATAACTTAATTTGGATACAATTTATAAGCATAAGCATAAGCTGAATAATTTTAATTAT
TCCAAATGAATTAT
Found at i:32581321 original size:37 final size:38
Alignment explanation
Indices: 32581237--32581401 Score: 119
Period size: 37 Copynumber: 4.3 Consensus size: 38
32581227 ACTAACACAA
* *
32581237 TAACAATAATAA-TA-GTTTTATACTCAAAATAATACTAAC
1 TAACAATAATAATTAGGGTTT-TACT--AAATAATAATAAC
32581276 TAACAATAATAATTAGGGTTTTACTAAA-AATAATAAC
1 TAACAATAATAATTAGGGTTTTACTAAATAATAATAAC
* *** * *
32581313 TAACAATAAT-A-TAGTGTAAAAACTAGCAATCATACTAAC
1 TAACAATAATAATTAGGGT-TTTACTA--AATAATAATAAC
**
32581352 TAA-AATAATAATTAGGGTTTTTACT-AATCCTAATAAC
1 TAACAATAATAATTAGGG-TTTTACTAAATAATAATAAC
*
32581389 TAACCATAATAAT
1 TAACAATAATAAT
32581402 AATATTTGTT
Statistics
Matches: 101, Mismatches: 15, Indels: 21
0.74 0.11 0.15
Matches are distributed among these distances:
35 5 0.05
36 5 0.05
37 31 0.31
38 19 0.19
39 23 0.23
40 13 0.13
41 5 0.05
ACGTcount: A:0.50, C:0.12, G:0.06, T:0.32
Consensus pattern (38 bp):
TAACAATAATAATTAGGGTTTTACTAAATAATAATAAC
Found at i:32581432 original size:41 final size:40
Alignment explanation
Indices: 32581251--32581432 Score: 110
Period size: 41 Copynumber: 4.6 Consensus size: 40
32581241 AATAATAATA
*
32581251 GTTTTATACTCAA-AATAATACTAACTAACAATAATAATTAGG
1 GTTTT-TACT-AACAATAATACTAACCAA-AATAATAATTAGG
* *
32581293 G-TTTTACTAAAAATAATAACTAA-C--AATAAT-A-TAGT
1 GTTTTTACTAACAATAAT-ACTAACCAAAATAATAATTAGG
**** * * *
32581328 GTAAAAACTAGCAATCATACTAACTAAAATAATAATTAGG
1 GTTTTTACTAACAATAATACTAACCAAAATAATAATTAGG
* * **
32581368 GTTTTTACTAATC-CTAATAACTAACCATAATAATAATATTTG
1 GTTTTTACTAA-CAATAAT-ACTAACCAAAATAATAAT-TAGG
*
32581410 TTTTTTACTAACAATAATACTAA
1 GTTTTTACTAACAATAATACTAA
32581433 GTAACAATAA
Statistics
Matches: 104, Mismatches: 24, Indels: 25
0.68 0.16 0.16
Matches are distributed among these distances:
35 9 0.09
36 10 0.10
37 6 0.06
38 6 0.06
39 3 0.03
40 22 0.21
41 31 0.30
42 17 0.16
ACGTcount: A:0.47, C:0.12, G:0.06, T:0.35
Consensus pattern (40 bp):
GTTTTTACTAACAATAATACTAACCAAAATAATAATTAGG
Found at i:32583125 original size:30 final size:30
Alignment explanation
Indices: 32583082--32583153 Score: 90
Period size: 30 Copynumber: 2.4 Consensus size: 30
32583072 GATTAAATCA
*
32583082 AAATTAAAGTTTCAAGTATATATTTGAACC
1 AAATTAAAGTTTCAAGTATATAATTGAACC
* * * * *
32583112 ACATTAGAGTTTCACGTGTATAATTGCACC
1 AAATTAAAGTTTCAAGTATATAATTGAACC
32583142 AAATTAAAGTTT
1 AAATTAAAGTTT
32583154 ATATATACAA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.36
Consensus pattern (30 bp):
AAATTAAAGTTTCAAGTATATAATTGAACC
Found at i:32583194 original size:29 final size:27
Alignment explanation
Indices: 32583082--32583194 Score: 73
Period size: 30 Copynumber: 3.8 Consensus size: 27
32583072 GATTAAATCA
* *
32583082 AAATTAAAGTTTCAAGTATATATTTGAACC
1 AAATTAAAG-TTCATGTATA-A-TTGCACC
* *
32583112 ACATTAGAGTTTCACGTGTATAATTGCACC
1 AAATTAAAG-TTCA--TGTATAATTGCACC
* * *
32583142 AAATTAAAGTTTATATATACAATTGCACATT
1 AAATTAAAGTTCATGTAT--AATTGCAC--C
32583173 AAATTAAAGTTCATGTATAATT
1 AAATTAAAGTTCATGTATAATT
32583195 TTGAGATTTA
Statistics
Matches: 66, Mismatches: 11, Indels: 13
0.73 0.12 0.14
Matches are distributed among these distances:
27 4 0.06
29 15 0.23
30 25 0.38
31 17 0.26
32 5 0.08
ACGTcount: A:0.41, C:0.12, G:0.11, T:0.37
Consensus pattern (27 bp):
AAATTAAAGTTCATGTATAATTGCACC
Found at i:32585910 original size:15 final size:15
Alignment explanation
Indices: 32585890--32585923 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
32585880 CCCGATTAAT
* *
32585890 AAAAAAACAGAAAGG
1 AAAAAAAAAGAAACG
32585905 AAAAAAAAAGAAACG
1 AAAAAAAAAGAAACG
32585920 AAAA
1 AAAA
32585924 CAGAGAAAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.79, C:0.06, G:0.15, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAGAAACG
Found at i:32586539 original size:245 final size:245
Alignment explanation
Indices: 32586109--32586561 Score: 854
Period size: 245 Copynumber: 1.8 Consensus size: 245
32586099 GCGTGGAGGC
* * *
32586109 GCACGCGCGGGGAAGAGGCGCGCCTGGGCTACTGCTATGGCGGCTGAAATAGAAAGCTGCTGAGG
1 GCACGCGCGGGGAAGAGGCGCACCTGGGCTACTGCTACGGCGGCTGAAACAGAAAGCTGCTGAGG
32586174 AAGGCTAGGGTTTCCTGTTATTTTTGGTATTGGGTTTTTGAGTTTGGGTTAATGGTTTGGGGCAA
66 AAGGCTAGGGTTTCCTGTTATTTTTGGTATTGGGTTTTTGAGTTTGGGTTAATGGTTTGGGGCAA
32586239 ATTAATGGGCTGTTTGTATTGGGCCTAGTGGGTTAGCATTTAAGCATTTGGGCCACTGTATTGGG
131 ATTAATGGGCTGTTTGTATTGGGCCTAGTGGGTTAGCATTTAAGCATTTGGGCCACTGTATTGGG
32586304 TTGATTTTGGACTCGAGGCCAGCCTGGAGATGCATGCACGCAGTGGTGCA
196 TTGATTTTGGACTCGAGGCCAGCCTGGAGATGCATGCACGCAGTGGTGCA
*
32586354 GCACGCGCGGGGAAGAGGCGCACCTGGGCTACTGCTGCGGCGGCTGAAACAGAAAGCTGCTGAGG
1 GCACGCGCGGGGAAGAGGCGCACCTGGGCTACTGCTACGGCGGCTGAAACAGAAAGCTGCTGAGG
32586419 AAGGCTAGGGTTTCCTGTTATTTTTGGTATTGGGTTTTTGAGTTTGGGGTTAATGG-TTGGGGCA
66 AAGGCTAGGGTTTCCTGTTATTTTTGGTATTGGGTTTTTGAGTTT-GGGTTAATGGTTTGGGGCA
32586483 AATTAATGGGCTGTTTGTATTGGGCCTAGTGGGTTAGCATTTAAGCATTTGGGCCACTGTATTGG
130 AATTAATGGGCTGTTTGTATTGGGCCTAGTGGGTTAGCATTTAAGCATTTGGGCCACTGTATTGG
32586548 GTTGATTTTGGACT
195 GTTGATTTTGGACT
32586562 GTATTAATTA
Statistics
Matches: 203, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
245 193 0.95
246 10 0.05
ACGTcount: A:0.19, C:0.15, G:0.36, T:0.31
Consensus pattern (245 bp):
GCACGCGCGGGGAAGAGGCGCACCTGGGCTACTGCTACGGCGGCTGAAACAGAAAGCTGCTGAGG
AAGGCTAGGGTTTCCTGTTATTTTTGGTATTGGGTTTTTGAGTTTGGGTTAATGGTTTGGGGCAA
ATTAATGGGCTGTTTGTATTGGGCCTAGTGGGTTAGCATTTAAGCATTTGGGCCACTGTATTGGG
TTGATTTTGGACTCGAGGCCAGCCTGGAGATGCATGCACGCAGTGGTGCA
Found at i:32588540 original size:14 final size:14
Alignment explanation
Indices: 32588516--32588561 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
32588506 ACTTTACTGT
32588516 TATAT-TGTATTTG
1 TATATATGTATTTG
32588529 TATATATGTATTTG
1 TATATATGTATTTG
* * *
32588543 TAAATATTTATTCG
1 TATATATGTATTTG
32588557 TATAT
1 TATAT
32588562 GTTGTAAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
13 5 0.18
14 23 0.82
ACGTcount: A:0.30, C:0.02, G:0.11, T:0.57
Consensus pattern (14 bp):
TATATATGTATTTG
Found at i:32589635 original size:14 final size:14
Alignment explanation
Indices: 32589611--32589656 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
32589601 ACTTTACTGT
32589611 TATAT-TGTATTTG
1 TATATATGTATTTG
32589624 TATATATGTATTTG
1 TATATATGTATTTG
* * *
32589638 TAAATATTTATTCG
1 TATATATGTATTTG
32589652 TATAT
1 TATAT
32589657 GTTGTAAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
13 5 0.18
14 23 0.82
ACGTcount: A:0.30, C:0.02, G:0.11, T:0.57
Consensus pattern (14 bp):
TATATATGTATTTG
Found at i:32590745 original size:23 final size:24
Alignment explanation
Indices: 32590699--32590751 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 24
32590689 ATGAATTATG
*
32590699 AAGCAAACAGAAAAAAGAAGAAGA
1 AAGCAAACAGAAAAAAGAAAAAGA
32590723 AAGCAAACAGAAAAAA-AAAAAGA
1 AAGCAAACAGAAAAAAGAAAAAGA
32590746 AA-CAAA
1 AAGCAAA
32590752 GGATTAAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
22 4 0.14
23 8 0.29
24 16 0.57
ACGTcount: A:0.75, C:0.09, G:0.15, T:0.00
Consensus pattern (24 bp):
AAGCAAACAGAAAAAAGAAAAAGA
Found at i:32592364 original size:44 final size:43
Alignment explanation
Indices: 32592299--32592427 Score: 147
Period size: 44 Copynumber: 3.0 Consensus size: 43
32592289 AGATTCGTTG
* *
32592299 TTGTAGCTTC-ATTCTAATCCACTGCAACTTCAGGG-G-TATGCGAA
1 TTGTAGCTTCAATT-TACTCCACTGCAACTTCAGGGAGATA-AC--A
*
32592343 TTGTAGCTTCAATTTACTCCACTACAACTTCAGGGAGATAACA
1 TTGTAGCTTCAATTTACTCCACTGCAACTTCAGGGAGATAACA
* *
32592386 TTCGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAA
1 TT-GTAGCTTCAATTTACTCCACTGCAACTTCAGGGAGATAA
32592428 GGTTTGCTAT
Statistics
Matches: 75, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
43 3 0.04
44 65 0.87
45 5 0.07
46 2 0.03
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (43 bp):
TTGTAGCTTCAATTTACTCCACTGCAACTTCAGGGAGATAACA
Found at i:32592464 original size:94 final size:94
Alignment explanation
Indices: 32592361--32592613 Score: 355
Period size: 94 Copynumber: 2.7 Consensus size: 94
32592351 TCAATTTACT
* ** *
32592361 CCACTACAACTTC-AGGGAGATAACATTCGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGA
1 CCACTACAACTTCAAGGG-TATAGGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGA
**
32592425 TAAGGTTTGCTATGGTAGATTTAATCCGAC
65 TAAGGTTAACTATGGTAGATTTAATCCGAC
* * *
32592455 CCACCACAACTTCAAGGGTATAGGATTTGTAGCGTCAATTTGCTCCACTGCAACTTCAGGGAGAT
1 CCACTACAACTTCAAGGGTATAGGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGAT
*
32592520 AAGGTTAACTATGGTATATTTAATCCGAC
66 AAGGTTAACTATGGTAGATTTAATCCGAC
** * * *
32592549 CCACTGTAACTTCAAGGGTATAGGATTTATAGCTTCAATCTACTCCACTGCAACTTTAGGGAGAT
1 CCACTACAACTTCAAGGGTATAGGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGAT
32592614 GATATTCGTA
Statistics
Matches: 140, Mismatches: 18, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
94 136 0.97
95 4 0.03
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (94 bp):
CCACTACAACTTCAAGGGTATAGGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGAT
AAGGTTAACTATGGTAGATTTAATCCGAC
Found at i:32592603 original size:138 final size:138
Alignment explanation
Indices: 32592461--32592714 Score: 316
Period size: 138 Copynumber: 1.8 Consensus size: 138
32592451 CGACCCACCA
* * * * *
32592461 CAACTTCAAGGGTATAGGAT-TT-GTAGCGTCAATTTGCTCCACTGCAACTTCAGGGAGATAAGG
1 CAACTT-AAGGG-AGAGGATATTCGTAGCGTCAATCTACTCCACTGCAACTTCAGAGAGATAAGA
* *
32592524 TTAACTATGGT-ATATTTAATCCGACCCACTGTAACTTCAAGGGTATAGGATTTATAGCTTCAAT
64 TTAACTATGGTGA-ATTCAATCCGACCCACTGCAACTTCAAGGGTATAGGATTTATAGCTTCAAT
32592588 CTACTCCACTG
128 CTACTCCACTG
* * * * *
32592599 CAACTTTAGGGAGATGATATTCGTAGCTTTAATCTATTCCACTGCAACTTCAGAGAGATAAGATT
1 CAACTTAAGGGAGAGGATATTCGTAGCGTCAATCTACTCCACTGCAACTTCAGAGAGATAAGATT
* * * *
32592664 CACTATGGTGACTTCAATTCGACCCACTGCAACTTCAGGGGTATAGGATTT
66 AACTATGGTGAATTCAATCCGACCCACTGCAACTTCAAGGGTATAGGATTT
32592715 GTGGTTTTAC
Statistics
Matches: 97, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
136 5 0.05
137 6 0.06
138 85 0.88
139 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (138 bp):
CAACTTAAGGGAGAGGATATTCGTAGCGTCAATCTACTCCACTGCAACTTCAGAGAGATAAGATT
AACTATGGTGAATTCAATCCGACCCACTGCAACTTCAAGGGTATAGGATTTATAGCTTCAATCTA
CTCCACTG
Found at i:32594635 original size:15 final size:15
Alignment explanation
Indices: 32594615--32594647 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
32594605 GACCAAATTG
32594615 AAAA-GGAGTAAAATA
1 AAAAGGGAG-AAAATA
32594630 AAAAGGGAGAAAATA
1 AAAAGGGAGAAAATA
32594645 AAA
1 AAA
32594648 GCAAAAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.70, C:0.00, G:0.21, T:0.09
Consensus pattern (15 bp):
AAAAGGGAGAAAATA
Found at i:32597218 original size:26 final size:26
Alignment explanation
Indices: 32597182--32597233 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
32597172 GTCAAATGAA
32597182 AAATCAAAACCCAGTAAGTTAGGGTT
1 AAATCAAAACCCAGTAAGTTAGGGTT
32597208 AAATCAAAACCCAGTAAGTTAGGGTT
1 AAATCAAAACCCAGTAAGTTAGGGTT
32597234 CAATTTCCCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.42, C:0.15, G:0.19, T:0.23
Consensus pattern (26 bp):
AAATCAAAACCCAGTAAGTTAGGGTT
Found at i:32597914 original size:19 final size:19
Alignment explanation
Indices: 32597890--32597952 Score: 51
Period size: 19 Copynumber: 3.3 Consensus size: 19
32597880 ATATATATAT
32597890 TAATAAATGATGAATTTAA
1 TAATAAATGATGAATTTAA
* *
32597909 TAATAATATG-TCAAGTTAAA
1 TAATAA-ATGATGAA-TTTAA
32597929 TTTAAT-AAT-ATGAATTTAA
1 --TAATAAATGATGAATTTAA
32597948 TAATA
1 TAATA
32597953 GTAATATTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 13
0.67 0.08 0.25
Matches are distributed among these distances:
17 4 0.12
19 13 0.38
20 12 0.35
21 1 0.03
22 4 0.12
ACGTcount: A:0.51, C:0.02, G:0.08, T:0.40
Consensus pattern (19 bp):
TAATAAATGATGAATTTAA
Found at i:32599804 original size:19 final size:19
Alignment explanation
Indices: 32599780--32599842 Score: 51
Period size: 19 Copynumber: 3.3 Consensus size: 19
32599770 ATATATATAT
32599780 TAATAAATGATGAATTTAA
1 TAATAAATGATGAATTTAA
* *
32599799 TAATAATATG-TCAAGTTAAA
1 TAATAA-ATGATGAA-TTTAA
32599819 TTTAAT-AAT-ATGAATTTAA
1 --TAATAAATGATGAATTTAA
32599838 TAATA
1 TAATA
32599843 GTAATATTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 13
0.67 0.08 0.25
Matches are distributed among these distances:
17 4 0.12
19 13 0.38
20 12 0.35
21 1 0.03
22 4 0.12
ACGTcount: A:0.51, C:0.02, G:0.08, T:0.40
Consensus pattern (19 bp):
TAATAAATGATGAATTTAA
Found at i:32601721 original size:21 final size:21
Alignment explanation
Indices: 32601696--32601750 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
32601686 GTGAGGGTCT
*
32601696 CACACGCCCGTGTGCCCATCAA
1 CACACGCCCGTGTGCCCA-AAA
* *
32601718 -ACACGACCGTGTGTCCAAAA
1 CACACGCCCGTGTGCCCAAAA
32601738 CACACGCCCGTGT
1 CACACGCCCGTGT
32601751 AGGATCCCTA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
20 2 0.07
21 26 0.93
ACGTcount: A:0.25, C:0.40, G:0.20, T:0.15
Consensus pattern (21 bp):
CACACGCCCGTGTGCCCAAAA
Found at i:32618740 original size:11 final size:9
Alignment explanation
Indices: 32618713--32618773 Score: 61
Period size: 9 Copynumber: 6.6 Consensus size: 9
32618703 ATGGGTTTGC
32618713 AAAAATAAA
1 AAAAATAAA
32618722 AAAAATAAA
1 AAAAATAAA
32618731 AAAAGGATAAA
1 AAAA--ATAAA
* *
32618742 ACAAATGAA
1 AAAAATAAA
*
32618751 CAAAATAAA
1 AAAAATAAA
32618760 AAAAA-AGAA
1 AAAAATA-AA
32618769 AAAAA
1 AAAAA
32618774 CAAAGGAACG
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
8 1 0.02
9 34 0.79
11 8 0.19
ACGTcount: A:0.82, C:0.03, G:0.07, T:0.08
Consensus pattern (9 bp):
AAAAATAAA
Found at i:32621302 original size:82 final size:82
Alignment explanation
Indices: 32620733--32621283 Score: 1050
Period size: 82 Copynumber: 6.7 Consensus size: 82
32620723 NNNNNNNNNN
32620733 GGAGATAAGACTTGATGCGATCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTGGTTTTGTCC
1 GGAGATAAGACTTGATGCGATCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTGGTTTTGTCC
32620798 GCTCCGCTACTGCTTAG
66 GCTCCGCTACTGCTTAG
*
32620815 GGAGATAAGACTTGATGCGATCCGCTCCACTATTGCTTAGGGAGATAAGATCTGTGGTTTTGTCC
1 GGAGATAAGACTTGATGCGATCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTGGTTTTGTCC
32620880 GCTCCGCTACTGCTTAG
66 GCTCCGCTACTGCTTAG
* *
32620897 GGAGATAAGACTTGATGCGATCCGCTCCACTATTGCTTAAGGAGATAAGATCTGTGGTTTTGTCC
1 GGAGATAAGACTTGATGCGATCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTGGTTTTGTCC
*
32620962 GTTCCGCTACTGCTTA-
66 GCTCCGCTACTGCTTAG
32620978 GGAGGATAAGACTTGATGCGATCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTGGTTTTGTC
1 GGA-GATAAGACTTGATGCGATCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTGGTTTTGTC
32621043 CGCTCCGCTACTGCTTAG
65 CGCTCCGCTACTGCTTAG
32621061 GGAGATAAGACTTGATGCGATCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTGGTTTTGTCC
1 GGAGATAAGACTTGATGCGATCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTGGTTTTGTCC
32621126 GCTCCGCTACTGCTTAG
66 GCTCCGCTACTGCTTAG
32621143 GGAGATAAGACTTGATGCGATCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTGGTTTTGTCC
1 GGAGATAAGACTTGATGCGATCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTGGTTTTGTCC
32621208 GCTCCGCTACTGCTTAG
66 GCTCCGCTACTGCTTAG
32621225 GGAGATAAGACTTGATGCGATCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTGGTT
1 GGAGATAAGACTTGATGCGATCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTGGTT
32621284 CTTCACTCTA
Statistics
Matches: 461, Mismatches: 6, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
81 3 0.01
82 455 0.99
83 3 0.01
ACGTcount: A:0.21, C:0.20, G:0.27, T:0.31
Consensus pattern (82 bp):
GGAGATAAGACTTGATGCGATCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTGGTTTTGTCC
GCTCCGCTACTGCTTAG
Found at i:32621439 original size:45 final size:46
Alignment explanation
Indices: 32621390--32621508 Score: 147
Period size: 44 Copynumber: 2.7 Consensus size: 46
32621380 TGCTTAGTCA
*
32621390 TCAGTACAGGAAGGCAAGATCTATTATCTTTAG-TCTGCTCCACTG
1 TCAGTACAGGAAGGCAAGATCTATTATCTTTAGATCTGCTCCACAG
* * *
32621435 TCAGTACAGGAAGGCAAGA-CTAGTT-TC-TTCGATCTGCTTCGCAG
1 TCAGTACAGGAAGGCAAGATCTA-TTATCTTTAGATCTGCTCCACAG
* *
32621479 TCAGTGCAGGAAGGCAAGATCTGTTATCTT
1 TCAGTACAGGAAGGCAAGATCTATTATCTT
32621509 CAACCAGCTC
Statistics
Matches: 63, Mismatches: 6, Indels: 9
0.81 0.08 0.12
Matches are distributed among these distances:
43 3 0.05
44 34 0.54
45 25 0.40
46 1 0.02
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (46 bp):
TCAGTACAGGAAGGCAAGATCTATTATCTTTAGATCTGCTCCACAG
Found at i:32621489 original size:44 final size:45
Alignment explanation
Indices: 32621370--32621509 Score: 153
Period size: 45 Copynumber: 3.1 Consensus size: 45
32621360 AAAATCTGCC
* *
32621370 ATCTTCGACCTGCTTAGTCA-TCAGTACAGGAAGGCAAGATCTATT
1 ATCTTCGATCTGCTTCG-CAGTCAGTACAGGAAGGCAAGATCTATT
* * * *
32621415 ATCTT-TAGTCTGCTCCACTGTCAGTACAGGAAGGCAAGA-CTAGTT
1 ATCTTCGA-TCTGCTTCGCAGTCAGTACAGGAAGGCAAGATCTA-TT
* *
32621460 -TCTTCGATCTGCTTCGCAGTCAGTGCAGGAAGGCAAGATCTGTT
1 ATCTTCGATCTGCTTCGCAGTCAGTACAGGAAGGCAAGATCTATT
32621504 ATCTTC
1 ATCTTC
32621510 AACCAGCTCT
Statistics
Matches: 77, Mismatches: 12, Indels: 12
0.76 0.12 0.12
Matches are distributed among these distances:
44 38 0.49
45 39 0.51
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (45 bp):
ATCTTCGATCTGCTTCGCAGTCAGTACAGGAAGGCAAGATCTATT
Found at i:32621579 original size:86 final size:86
Alignment explanation
Indices: 32621460--32622116 Score: 1071
Period size: 86 Copynumber: 7.6 Consensus size: 86
32621450 AAGACTAGTT
* * *
32621460 TCTTCGATCTGCTTCGCAGTCAGTGCAGGAAGGCAAGATCTGTTATCTTCAACCAGCTCTGCTAC
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCTGCTAC
*
32621525 AAACGAGAGAGGTAAGGTTTG
66 AAACGAGAGAGGCAAGGTTTG
*
32621546 TCTTTGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCTGCTAC
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCTGCTAC
*
32621611 AAACGAGAGAGGTAAGGTTTG
66 AAACGAGAGAGGCAAGGTTTG
*
32621632 TCTTTGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCTGCTAC
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCTGCTAC
32621697 AAACGAGAGAGGCAAGGTTTG
66 AAACGAGAGAGGCAAGGTTTG
32621718 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCTGCTAC
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCTGCTAC
*
32621783 AAACGAGAGAGGCAATGTTTG
66 AAACGAGAGAGGCAAGGTTTG
* *
32621804 TCTTCGATCTGCTTCACTGTCAATGCAGGAAGGTAAGATCTGCTATCTTCAACCAGCTCTGCTAC
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCTGCTAC
* *
32621869 GACCGAGAGAGGCAAGGTTTGTG
66 AAACGAGAGAGGCAAGG-TT-TG
* *
32621892 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCTGCTAC
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCTGCTAC
* *
32621957 AACCGAGAGAGGTAAGGTTTGTG
66 AAACGAGAGAGGCAAGG-TT-TG
* **
32621980 TCTTCGATATGCTTCGCCATCAATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCTGCTAC
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCTGCTAC
32622045 AAACGAGAGAGGCAAGGTTTG
66 AAACGAGAGAGGCAAGGTTTG
* * * *
32622066 TCTTCGATCTGCTTCACTGTCAATGCAGAAAGGCAAGATCTGGTAACTTCA
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTCA
32622117 TTGCTCTGTT
Statistics
Matches: 537, Mismatches: 32, Indels: 4
0.94 0.06 0.01
Matches are distributed among these distances:
86 374 0.70
87 4 0.01
88 159 0.30
ACGTcount: A:0.25, C:0.23, G:0.24, T:0.27
Consensus pattern (86 bp):
TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCTGCTAC
AAACGAGAGAGGCAAGGTTTG
Found at i:32621984 original size:43 final size:43
Alignment explanation
Indices: 32621849--32622066 Score: 135
Period size: 44 Copynumber: 5.0 Consensus size: 43
32621839 AGATCTGCTA
*
32621849 TCTTCAACCAGCTCTGCTACGACCGAGAGAGGCAAGGTTTGTG
1 TCTTCAACCAGCTCTGCTACAACCGAGAGAGGCAAGGTTTGTG
* * * * * * *
32621892 TCTTCGATCTGCT-TCGCTGTCAA-TGCAG-GAAGGCAAGATCTGTTG
1 TCTTCAACCAGCTCT-GCT-ACAACCG-AGAG-AGGCAAGGTTTG-TG
*
32621937 TCTTCAACCAGCTCTGCTACAACCGAGAGAGGTAAGGTTTGTG
1 TCTTCAACCAGCTCTGCTACAACCGAGAGAGGCAAGGTTTGTG
* * * * * * *
32621980 TCTTCGA-TATGCT-TCGCCATCAA-TGCAG-GAAGGCAAGATCTGCTA
1 TCTTCAACCA-GCTCT-GCTA-CAACCG-AGAG-AGGCAAGGTTTG-TG
*
32622025 TCTTCAACCAGCTCTGCTACAAACGAGAGAGGCAAGGTTTGT
1 TCTTCAACCAGCTCTGCTACAACCGAGAGAGGCAAGGTTTGT
32622067 CTTCGATCTG
Statistics
Matches: 127, Mismatches: 30, Indels: 36
0.66 0.16 0.19
Matches are distributed among these distances:
42 3 0.02
43 32 0.25
44 57 0.45
45 32 0.25
46 3 0.02
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.26
Consensus pattern (43 bp):
TCTTCAACCAGCTCTGCTACAACCGAGAGAGGCAAGGTTTGTG
Found at i:32622940 original size:19 final size:20
Alignment explanation
Indices: 32622918--32622962 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
32622908 TGGCCTCTCC
32622918 TTTTTCTTTTTGTTCTTT-T
1 TTTTTCTTTTTGTTCTTTCT
* *
32622937 TTTTTCTTTTTTTTGTTTCT
1 TTTTTCTTTTTGTTCTTTCT
32622957 TTTTTC
1 TTTTTC
32622963 GAGTGAAGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.00, C:0.11, G:0.04, T:0.84
Consensus pattern (20 bp):
TTTTTCTTTTTGTTCTTTCT
Found at i:32622943 original size:10 final size:10
Alignment explanation
Indices: 32622918--32622950 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
32622908 TGGCCTCTCC
32622918 TTTTTC-TTT
1 TTTTTCTTTT
*
32622927 TTGTTCTTTT
1 TTTTTCTTTT
32622937 TTTTTCTTTT
1 TTTTTCTTTT
32622947 TTTT
1 TTTT
32622951 GTTTCTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 5 0.24
10 16 0.76
ACGTcount: A:0.00, C:0.09, G:0.03, T:0.88
Consensus pattern (10 bp):
TTTTTCTTTT
Found at i:32622948 original size:9 final size:9
Alignment explanation
Indices: 32622918--32622960 Score: 50
Period size: 9 Copynumber: 4.6 Consensus size: 9
32622908 TGGCCTCTCC
32622918 TTTTTCTTT
1 TTTTTCTTT
*
32622927 TTGTTCTTTT
1 TTTTTC-TTT
32622937 TTTTTCTTT
1 TTTTTCTTT
*
32622946 TTTTTGTTT
1 TTTTTCTTT
32622955 CTTTTT
1 -TTTTT
32622961 TCGAGTGAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
9 16 0.55
10 13 0.45
ACGTcount: A:0.00, C:0.09, G:0.05, T:0.86
Consensus pattern (9 bp):
TTTTTCTTT
Found at i:32622949 original size:13 final size:13
Alignment explanation
Indices: 32622918--32622961 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
32622908 TGGCCTCTCC
* *
32622918 TTTTTCTTTTTGT
1 TTTTTTTTTTTCT
*
32622931 TCTTTTTTTTTCT
1 TTTTTTTTTTTCT
*
32622944 TTTTTTTGTTTCT
1 TTTTTTTTTTTCT
32622957 TTTTT
1 TTTTT
32622962 CGAGTGAAGT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.00, C:0.09, G:0.05, T:0.86
Consensus pattern (13 bp):
TTTTTTTTTTTCT
Found at i:32623413 original size:16 final size:16
Alignment explanation
Indices: 32623380--32623431 Score: 72
Period size: 16 Copynumber: 3.4 Consensus size: 16
32623370 CCGGTAGAGG
*
32623380 TTTTTT-TTCTCTTA-
1 TTTTTTATTCTTTTAT
32623394 TTTTTTATTCTTTTAT
1 TTTTTTATTCTTTTAT
*
32623410 TTTTTTATTTTTTTAT
1 TTTTTTATTCTTTTAT
32623426 TTTTTT
1 TTTTTT
32623432 GCTTTTGTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
14 6 0.18
15 7 0.21
16 21 0.62
ACGTcount: A:0.10, C:0.06, G:0.00, T:0.85
Consensus pattern (16 bp):
TTTTTTATTCTTTTAT
Found at i:32623431 original size:8 final size:8
Alignment explanation
Indices: 32623394--32623431 Score: 67
Period size: 8 Copynumber: 4.8 Consensus size: 8
32623384 TTTTCTCTTA
32623394 TTTTTTAT
1 TTTTTTAT
*
32623402 TCTTTTAT
1 TTTTTTAT
32623410 TTTTTTAT
1 TTTTTTAT
32623418 TTTTTTAT
1 TTTTTTAT
32623426 TTTTTT
1 TTTTTT
32623432 GCTTTTGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.11, C:0.03, G:0.00, T:0.87
Consensus pattern (8 bp):
TTTTTTAT
Found at i:32623437 original size:15 final size:15
Alignment explanation
Indices: 32623380--32623437 Score: 57
Period size: 15 Copynumber: 3.9 Consensus size: 15
32623370 CCGGTAGAGG
*
32623380 TTTTTTTTC-TCTTA
1 TTTTTTTTCTTTTTA
32623394 TTTTTTATTC-TTTTA
1 TTTTTT-TTCTTTTTA
*
32623409 TTTTTTTATTTTTTTA
1 TTTTTTT-TCTTTTTA
*
32623425 TTTTTTTGCTTTT
1 TTTTTTTTCTTTT
32623438 GTTTTCTCGT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
14 7 0.19
15 18 0.49
16 12 0.32
ACGTcount: A:0.09, C:0.07, G:0.02, T:0.83
Consensus pattern (15 bp):
TTTTTTTTCTTTTTA
Found at i:32623437 original size:16 final size:16
Alignment explanation
Indices: 32623394--32623437 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
32623384 TTTTCTCTTA
32623394 TTTTTTA-TTCTTTTAT
1 TTTTTTACTT-TTTTAT
*
32623410 TTTTTTATTTTTTTAT
1 TTTTTTACTTTTTTAT
*
32623426 TTTTTTGCTTTT
1 TTTTTTACTTTT
32623438 GTTTTCTCGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 23 0.92
17 2 0.08
ACGTcount: A:0.09, C:0.05, G:0.02, T:0.84
Consensus pattern (16 bp):
TTTTTTACTTTTTTAT
Found at i:32623465 original size:23 final size:20
Alignment explanation
Indices: 32623425--32623505 Score: 67
Period size: 23 Copynumber: 3.8 Consensus size: 20
32623415 TATTTTTTTA
32623425 TTTTTTTGCTTTTGTTTTCTCGT
1 TTTTTTTGC-TTT-TTTTCTC-T
*
32623448 TTTTTTTGCTTCCTTTTT-TTT
1 TTTTTTTGCTT--TTTTTCTCT
*
32623469 ACTTTTTTTGCTTTTTTGCTCT
1 --TTTTTTTGCTTTTTTTCTCT
32623491 TTTTTTTG-TTTTTTT
1 TTTTTTTGCTTTTTTT
32623506 TTTGTTTTTG
Statistics
Matches: 49, Mismatches: 4, Indels: 14
0.73 0.06 0.21
Matches are distributed among these distances:
19 6 0.12
20 8 0.16
21 5 0.10
22 5 0.10
23 24 0.49
24 1 0.02
ACGTcount: A:0.01, C:0.12, G:0.09, T:0.78
Consensus pattern (20 bp):
TTTTTTTGCTTTTTTTCTCT
Found at i:32623473 original size:10 final size:9
Alignment explanation
Indices: 32623394--32623506 Score: 59
Period size: 10 Copynumber: 11.9 Consensus size: 9
32623384 TTTTCTCTTA
32623394 TTTTTTATTC
1 TTTTTT-TTC
32623404 TTTTATTTT-
1 TTTT-TTTTC
*
32623413 TTTATTTTTT
1 TTT-TTTTTC
32623423 TATTTTTTTGC
1 T-TTTTTTT-C
32623434 TTTTGTTTTC
1 TTTT-TTTTC
**
32623444 TCGTTTTT-
1 TTTTTTTTC
** *
32623452 TTTGCTTCC
1 TTTTTTTTC
32623461 TTTTTTTTAC
1 TTTTTTTT-C
*
32623471 TTTTTTTGC
1 TTTTTTTTC
*
32623480 TTTTTTGCTC
1 TTTTTT-TTC
*
32623490 TTTTTTTTG
1 TTTTTTTTC
32623499 TTTTTTTT
1 TTTTTTTT
32623507 TTGTTTTTGC
Statistics
Matches: 78, Mismatches: 16, Indels: 19
0.69 0.14 0.17
Matches are distributed among these distances:
8 3 0.04
9 32 0.41
10 34 0.44
11 9 0.12
ACGTcount: A:0.04, C:0.10, G:0.06, T:0.80
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:32623507 original size:31 final size:30
Alignment explanation
Indices: 32623449--32623514 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 30
32623439 TTTTCTCGTT
32623449 TTTTTTGCTTCCTTTTTTTTACTTTTTTTG
1 TTTTTTGCTTCCTTTTTTTTACTTTTTTTG
* **
32623479 CTTTTTTGC-TCTTTTTTTTGTTTTTTTTTTG
1 -TTTTTTGCTTCCTTTTTTT-TACTTTTTTTG
32623510 TTTTT
1 TTTTT
32623515 GCCTCTACTG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
30 14 0.45
31 17 0.55
ACGTcount: A:0.02, C:0.11, G:0.08, T:0.80
Consensus pattern (30 bp):
TTTTTTGCTTCCTTTTTTTTACTTTTTTTG
Found at i:32624893 original size:62 final size:62
Alignment explanation
Indices: 32624791--32624915 Score: 207
Period size: 62 Copynumber: 2.0 Consensus size: 62
32624781 CTAAACTCGA
*
32624791 CGTACTTTTGGATTTTAGGAAATTTATAGTATGCAATGAAATGTAATGTTGATGCATGAATG
1 CGTACTTTTGGATTTTAGGAAATTTATAGTATGCAATGAAATGTAATGTTAATGCATGAATG
* *
32624853 CGTATTTTTGGATTTTAGGAAATTTATTA-TATGTAATGAAATGTAATGTTAATGCATGAATG
1 CGTACTTTTGGATTTTAGGAAATTTA-TAGTATGCAATGAAATGTAATGTTAATGCATGAATG
32624915 C
1 C
32624916 AAAAAAAAAA
Statistics
Matches: 59, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
62 57 0.97
63 2 0.03
ACGTcount: A:0.33, C:0.06, G:0.21, T:0.41
Consensus pattern (62 bp):
CGTACTTTTGGATTTTAGGAAATTTATAGTATGCAATGAAATGTAATGTTAATGCATGAATG
Found at i:32640296 original size:9 final size:9
Alignment explanation
Indices: 32640278--32640314 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
32640268 TATAGTTTGA
32640278 TATTCGAAT
1 TATTCGAAT
*
32640287 TATTCAAAT
1 TATTCGAAT
*
32640296 TATTCGAGT
1 TATTCGAAT
32640305 TATTCGAAT
1 TATTCGAAT
32640314 T
1 T
32640315 CGAAAACTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:32642451 original size:87 final size:88
Alignment explanation
Indices: 32642303--32642473 Score: 326
Period size: 87 Copynumber: 1.9 Consensus size: 88
32642293 GAAAAGGTTT
32642303 TTGTAAACTTATATTATTTGTTTTTTTTTTATTTTAGAAATTAATGAATATGCTAGTCTATCTTC
1 TTGTAAACTTATATTATTTG-TTTTTTTTTATTTTAGAAATTAATGAATATGCTAGTCTATCTTC
32642368 TTACCTGATTGCAATATTACCTGA
65 TTACCTGATTGCAATATTACCTGA
32642392 TTGTAAACTTATATTATTTG-TTTTTTTTATTTTAGAAATTAATGAATATGCTAGTCTATCTTCT
1 TTGTAAACTTATATTATTTGTTTTTTTTTATTTTAGAAATTAATGAATATGCTAGTCTATCTTCT
32642456 TACCTGATTGCAATATTA
66 TACCTGATTGCAATATTA
32642474 TGATCTATGT
Statistics
Matches: 82, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
87 62 0.76
89 20 0.24
ACGTcount: A:0.29, C:0.11, G:0.10, T:0.51
Consensus pattern (88 bp):
TTGTAAACTTATATTATTTGTTTTTTTTTATTTTAGAAATTAATGAATATGCTAGTCTATCTTCT
TACCTGATTGCAATATTACCTGA
Found at i:32644580 original size:13 final size:13
Alignment explanation
Indices: 32644562--32644586 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32644552 CTGTAAATCA
32644562 GTATTTGTTATCT
1 GTATTTGTTATCT
32644575 GTATTTGTTATC
1 GTATTTGTTATC
32644587 CATATCTATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.08, G:0.16, T:0.60
Consensus pattern (13 bp):
GTATTTGTTATCT
Found at i:32647765 original size:3 final size:3
Alignment explanation
Indices: 32647757--32647823 Score: 53
Period size: 3 Copynumber: 22.3 Consensus size: 3
32647747 CGGTGGCGAA
* * * * * * *
32647757 GAG GAG GAG GAG GAG GAG GAG GTG GGG GTG GTG GTG GTG GTG GAG GAG
1 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG
* *
32647805 GAG GAG GTG GAG GTG GAG G
1 GAG GAG GAG GAG GAG GAG G
32647824 TGGGGGTGAC
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.19, C:0.00, G:0.69, T:0.12
Consensus pattern (3 bp):
GAG
Found at i:32647802 original size:33 final size:33
Alignment explanation
Indices: 32647765--32647831 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
32647755 AAGAGGAGGA
* * *
32647765 GGAGGAGGAGGAGGTGGGGGTGGTGGTGGTGGT
1 GGAGGAGGAGGAGGTGGAGGTGGAGGTGGGGGT
32647798 GGAGGAGGAGGAGGTGGAGGTGGAGGTGGGGGT
1 GGAGGAGGAGGAGGTGGAGGTGGAGGTGGGGGT
32647831 G
1 G
32647832 ACCTCATAGG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.15, C:0.00, G:0.70, T:0.15
Consensus pattern (33 bp):
GGAGGAGGAGGAGGTGGAGGTGGAGGTGGGGGT
Found at i:32647824 original size:6 final size:6
Alignment explanation
Indices: 32647757--32647831 Score: 57
Period size: 6 Copynumber: 13.0 Consensus size: 6
32647747 CGGTGGCGAA
* * * * * *
32647757 GAGGAG GAGGAG GAGGAG GAGGTG GGGGTG GTGGTG GTGGTG GA---G
1 GAGGTG GAGGTG GAGGTG GAGGTG GAGGTG GAGGTG GAGGTG GAGGTG
* *
32647802 GAGGAG GAGGTG GAGGTG GAGGTG GGGGTG
1 GAGGTG GAGGTG GAGGTG GAGGTG GAGGTG
32647832 ACCTCATAGG
Statistics
Matches: 60, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
3 3 0.05
6 57 0.95
ACGTcount: A:0.17, C:0.00, G:0.69, T:0.13
Consensus pattern (6 bp):
GAGGTG
Found at i:32651906 original size:16 final size:16
Alignment explanation
Indices: 32651887--32651917 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
32651877 GTTATAATTA
*
32651887 TTTATTTAATTAATAC
1 TTTATTTAAATAATAC
32651903 TTTATTTAAATAATA
1 TTTATTTAAATAATA
32651918 ATATATTTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (16 bp):
TTTATTTAAATAATAC
Found at i:32667564 original size:25 final size:24
Alignment explanation
Indices: 32667536--32667600 Score: 66
Period size: 25 Copynumber: 2.8 Consensus size: 24
32667526 TATATACATA
32667536 AATATTAGATATTAATATTTGAAAT
1 AATATTAGATATTAATATTT-AAAT
* *
32667561 AATAATAGATTAATAATATTTAAAT
1 AATATTAGA-TATTAATATTTAAAT
32667586 --TATT--ATATTAATATT
1 AATATTAGATATTAATATT
32667601 AAAAACCCAA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
20 9 0.26
21 1 0.03
23 3 0.09
25 12 0.34
26 10 0.29
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (24 bp):
AATATTAGATATTAATATTTAAAT
Found at i:32669472 original size:14 final size:16
Alignment explanation
Indices: 32669452--32669485 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
32669442 TAATTTTTTA
*
32669452 AAAAAAAATTAA-ATT
1 AAAAAAAGTTAATATT
32669467 AAAAAAAGTTAATATT
1 AAAAAAAGTTAATATT
32669483 AAA
1 AAA
32669486 CTATTTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (16 bp):
AAAAAAAGTTAATATT
Found at i:32670193 original size:30 final size:30
Alignment explanation
Indices: 32670147--32670235 Score: 125
Period size: 25 Copynumber: 3.1 Consensus size: 30
32670137 ATTTCTTATG
*
32670147 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
32670178 CCAATATTTGATACCCATATCTTTGAC-TT
1 CCAATATTTGATACCCATATCTTTGACTTT
32670207 ----TATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
32670233 CCA
1 CCA
32670236 TAAATATGGA
Statistics
Matches: 53, Mismatches: 1, Indels: 10
0.83 0.02 0.16
Matches are distributed among these distances:
25 23 0.43
26 2 0.04
29 2 0.04
30 19 0.36
31 7 0.13
ACGTcount: A:0.26, C:0.26, G:0.07, T:0.42
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:32670202 original size:15 final size:15
Alignment explanation
Indices: 32670157--32670203 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
32670147 CCAATATCTC
32670157 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
32670172 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
32670187 GATACCCATATCTTT
1 GATACCCATATCTTT
32670202 GA
1 GA
32670204 CTTTATTTGA
Statistics
Matches: 24, Mismatches: 6, Indels: 4
0.71 0.18 0.12
Matches are distributed among these distances:
14 4 0.17
15 16 0.67
16 4 0.17
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:32670504 original size:28 final size:27
Alignment explanation
Indices: 32670410--32670497 Score: 83
Period size: 28 Copynumber: 3.3 Consensus size: 27
32670400 ATGTATTTTT
32670410 ATATTTTCAATAATCA-TTATTAACAA
1 ATATTTTCAATAATCATTTATTAACAA
* ** * *
32670436 ATA-TTTGAATAAAAGATTTAATAATCAT
1 ATATTTTCAAT-AATCATTTATTAA-CAA
32670464 AT-TTTTCAATAATCATTTTATTAACAA
1 ATATTTTCAATAATCA-TTTATTAACAA
32670491 ATATTTT
1 ATATTTT
32670498 AATTAATTCA
Statistics
Matches: 46, Mismatches: 10, Indels: 10
0.70 0.15 0.15
Matches are distributed among these distances:
25 6 0.13
26 6 0.13
27 13 0.28
28 21 0.46
ACGTcount: A:0.44, C:0.08, G:0.02, T:0.45
Consensus pattern (27 bp):
ATATTTTCAATAATCATTTATTAACAA
Found at i:32671728 original size:19 final size:19
Alignment explanation
Indices: 32671704--32671742 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
32671694 AGTTTGACTC
32671704 TAATCACCCCTTCTTCCCT
1 TAATCACCCCTTCTTCCCT
32671723 TAATCACCCCTTCTTCCCT
1 TAATCACCCCTTCTTCCCT
32671742 T
1 T
32671743 TGAAAATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.15, C:0.46, G:0.00, T:0.38
Consensus pattern (19 bp):
TAATCACCCCTTCTTCCCT
Found at i:32672126 original size:15 final size:15
Alignment explanation
Indices: 32672106--32672135 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
32672096 ACTAAAAATT
32672106 TATTTTAAAAATAAA
1 TATTTTAAAAATAAA
*
32672121 TATTTTAAAATTAAA
1 TATTTTAAAAATAAA
32672136 AAAATAAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
TATTTTAAAAATAAA
Found at i:32687113 original size:619 final size:619
Alignment explanation
Indices: 32685934--32687175 Score: 2475
Period size: 619 Copynumber: 2.0 Consensus size: 619
32685924 TTTGGTTTGG
32685934 AAAACTTGAGTTTCAAGTCCAATATTTGTCCGATGTGATTTTGATTCAATTTTACCTTAATTCAT
1 AAAACTTGAGTTTCAAGTCCAATATTTGTCCGATGTGATTTTGATTCAATTTTACCTTAATTCAT
32685999 TATATTTTATCATTTTTATATGGTTTAATATGGGATTTGATACCCGAGTTTGACACGGTTTTTCT
66 TATATTTTATCATTTTTATATGGTTTAATATGGGATTTGATACCCGAGTTTGACACGGTTTTTCT
32686064 GGTGTCTTACTTGTGTATCTGTTACATGTATATGACAAAAATTATATATTTTAGTATCCAAAGTT
131 GGTGTCTTACTTGTGTATCTGTTACATGTATATGACAAAAATTATATATTTTAGTATCCAAAGTT
32686129 AACAGTGTTAATTGTTTAGGGTTTAATTTGGGTTTTAGTGTGGATTTGTTGAAAGTTAATTGTTA
196 AACAGTGTTAATTGTTTAGGGTTTAATTTGGGTTTTAGTGTGGATTTGTTGAAAGTTAATTGTTA
32686194 ATAATATTATTGAATTTTTCATGATTTTGTTAATAGAATAAATTTAGTGCTGATTGTGAATTTGT
261 ATAATATTATTGAATTTTTCATGATTTTGTTAATAGAATAAATTTAGTGCTGATTGTGAATTTGT
32686259 TTAATTTTACATTTAATTTATCAAATACAATCCGATAGATGTGATTTAATTCGGGTTTTAAGGTT
326 TTAATTTTACATTTAATTTATCAAATACAATCCGATAGATGTGATTTAATTCGGGTTTTAAGGTT
32686324 GATTTGATAAAATTTAATTACTAATATTATTATCTAATTAAGAGTTTTGGATAAATCAACTCTAA
391 GATTTGATAAAATTTAATTACTAATATTATTATCTAATTAAGAGTTTTGGATAAATCAACTCTAA
32686389 AGCACAAGTTAAACACTAAATAGAAAAAAACTTCTTTGCTATCCATATAAAAAAAAAGCATTGTG
456 AGCACAAGTTAAACACTAAATAGAAAAAAACTTCTTTGCTATCCATATAAAAAAAAAGCATTGTG
32686454 ATAAATTTAAATTTAATAAAAATATTTTATTAATATTAATAATTAAATTATATTTTAAAATTAAA
521 ATAAATTTAAATTTAATAAAAATATTTTATTAATATTAATAATTAAATTATATTTTAAAATTAAA
*
32686519 AAATAGAAGATCAAAATCCTTCAAATACAAAATA
586 AAATAGAAGATCAAAATCCTTCAAATAAAAAATA
32686553 AAAACTTGAGTTTCAAGTCCAATATTTGTCCGATGTGATTTTGATTCAATTTTACCTTAATTCAT
1 AAAACTTGAGTTTCAAGTCCAATATTTGTCCGATGTGATTTTGATTCAATTTTACCTTAATTCAT
32686618 TATATTTTATCATTTTTATATGGTTTAATATGGGATTTGATACCCGAGTTTGACACGGTTTTTCT
66 TATATTTTATCATTTTTATATGGTTTAATATGGGATTTGATACCCGAGTTTGACACGGTTTTTCT
32686683 GGTGTCTTACTTGTGTATCTGTTACATGTATATGACAAAAATTATATATTTTAGTATCCAAAGTT
131 GGTGTCTTACTTGTGTATCTGTTACATGTATATGACAAAAATTATATATTTTAGTATCCAAAGTT
32686748 AACAGTGTTAATTGTTTAGGGTTTAATTTGGGTTTTAGTGTGGATTTGTTGAAAGTTAATTGTTA
196 AACAGTGTTAATTGTTTAGGGTTTAATTTGGGTTTTAGTGTGGATTTGTTGAAAGTTAATTGTTA
32686813 ATAATATTATTGAATTTTTCATGATTTTGTTAATAGAATAAATTTAGTGCTGATTGTGAATTTGT
261 ATAATATTATTGAATTTTTCATGATTTTGTTAATAGAATAAATTTAGTGCTGATTGTGAATTTGT
32686878 TTAATTTTACATTTAATTTATCAAATACAATCCGATAGATGTGATTTAATTCGGGTTTTAAGGTT
326 TTAATTTTACATTTAATTTATCAAATACAATCCGATAGATGTGATTTAATTCGGGTTTTAAGGTT
32686943 GATTTGATAAAATTTAATTACTAATATTATTATCTAATTAAGAGTTTTGGATAAATCAACTCTAA
391 GATTTGATAAAATTTAATTACTAATATTATTATCTAATTAAGAGTTTTGGATAAATCAACTCTAA
32687008 AGCACAAGTTAAACACTAAATAGAAAAAAACTTCTTTGCTATCCATATAAAAAAAAAGCATTGTG
456 AGCACAAGTTAAACACTAAATAGAAAAAAACTTCTTTGCTATCCATATAAAAAAAAAGCATTGTG
32687073 ATAAATTTAAATTTAATAAAAATATTTTATTAATATTAATAATTAAATTATATTTTAAAATTAAA
521 ATAAATTTAAATTTAATAAAAATATTTTATTAATATTAATAATTAAATTATATTTTAAAATTAAA
32687138 AAATAGAAGATCAAAATCCTTCAAATAAAAAATA
586 AAATAGAAGATCAAAATCCTTCAAATAAAAAATA
32687172 AAAA
1 AAAA
32687176 TAAAAACACT
Statistics
Matches: 622, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
619 622 1.00
ACGTcount: A:0.37, C:0.08, G:0.13, T:0.42
Consensus pattern (619 bp):
AAAACTTGAGTTTCAAGTCCAATATTTGTCCGATGTGATTTTGATTCAATTTTACCTTAATTCAT
TATATTTTATCATTTTTATATGGTTTAATATGGGATTTGATACCCGAGTTTGACACGGTTTTTCT
GGTGTCTTACTTGTGTATCTGTTACATGTATATGACAAAAATTATATATTTTAGTATCCAAAGTT
AACAGTGTTAATTGTTTAGGGTTTAATTTGGGTTTTAGTGTGGATTTGTTGAAAGTTAATTGTTA
ATAATATTATTGAATTTTTCATGATTTTGTTAATAGAATAAATTTAGTGCTGATTGTGAATTTGT
TTAATTTTACATTTAATTTATCAAATACAATCCGATAGATGTGATTTAATTCGGGTTTTAAGGTT
GATTTGATAAAATTTAATTACTAATATTATTATCTAATTAAGAGTTTTGGATAAATCAACTCTAA
AGCACAAGTTAAACACTAAATAGAAAAAAACTTCTTTGCTATCCATATAAAAAAAAAGCATTGTG
ATAAATTTAAATTTAATAAAAATATTTTATTAATATTAATAATTAAATTATATTTTAAAATTAAA
AAATAGAAGATCAAAATCCTTCAAATAAAAAATA
Found at i:32687691 original size:22 final size:22
Alignment explanation
Indices: 32687666--32687710 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
32687656 TTGCAACAAA
*
32687666 TAAAA-AATAAAATTATTAATAT
1 TAAAATAATAAAA-TATAAATAT
*
32687688 TAAAATAATATAATATAAATAT
1 TAAAATAATAAAATATAAATAT
32687710 T
1 T
32687711 TTTAATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
TAAAATAATAAAATATAAATAT
Found at i:32696188 original size:57 final size:57
Alignment explanation
Indices: 32696082--32696200 Score: 161
Period size: 57 Copynumber: 2.1 Consensus size: 57
32696072 TTTTTCATAC
* *
32696082 TCATTTTCATTTTGGAGAAAACCACATTCATTTCCAAATAGTTCTATTTCTCCATTT
1 TCATTTTCATTTTGGAGAAAACCACAATCATTTCCAAATAGTTCCATTTCTCCATTT
* *
32696139 TCATTTTCATTTTGGAGAAAACCATAATCATTT-CAAA-GGTTTCCCATTTCTCCATTT
1 TCATTTTCATTTTGGAGAAAACCACAATCATTTCCAAATAG-TT-CCATTTCTCCATTT
*
32696196 CCATT
1 TCATT
32696201 CATTTTTTGT
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
55 1 0.02
56 6 0.11
57 48 0.87
ACGTcount: A:0.28, C:0.22, G:0.08, T:0.43
Consensus pattern (57 bp):
TCATTTTCATTTTGGAGAAAACCACAATCATTTCCAAATAGTTCCATTTCTCCATTT
Found at i:32699533 original size:92 final size:93
Alignment explanation
Indices: 32699415--32699599 Score: 363
Period size: 92 Copynumber: 2.0 Consensus size: 93
32699405 AGATTTATTA
32699415 TTAAATAAATATAAAGTAGAACCAAATCAATACAAATACGATAAATAAATAACTGTAAATAATTA
1 TTAAATAAATATAAAGTAGAACCAAATCAATACAAATACGATAAATAAATAACTGTAAATAATTA
32699480 CTAAAACTCGTCTAGGACAAAGATGCAT
66 CTAAAACTCGTCTAGGACAAAGATGCAT
32699508 TTAAATAAAT-TAAAGTAGAACCAAATCAATACAAATACGATAAATAAATAACTGTAAATAATTA
1 TTAAATAAATATAAAGTAGAACCAAATCAATACAAATACGATAAATAAATAACTGTAAATAATTA
32699572 CTAAAACTCGTCTAGGACAAAGATGCAT
66 CTAAAACTCGTCTAGGACAAAGATGCAT
32699600 CTTGAAATTA
Statistics
Matches: 92, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
92 82 0.89
93 10 0.11
ACGTcount: A:0.52, C:0.13, G:0.10, T:0.25
Consensus pattern (93 bp):
TTAAATAAATATAAAGTAGAACCAAATCAATACAAATACGATAAATAAATAACTGTAAATAATTA
CTAAAACTCGTCTAGGACAAAGATGCAT
Found at i:32702154 original size:18 final size:17
Alignment explanation
Indices: 32702127--32702164 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
32702117 GTGTTTGGTA
*
32702127 AATCATTCAAAATTTTT
1 AATCATTCAAAATATTT
32702144 AATCTATTCAAAATATTT
1 AATC-ATTCAAAATATTT
32702162 AAT
1 AAT
32702165 ATTTTATTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.45, C:0.11, G:0.00, T:0.45
Consensus pattern (17 bp):
AATCATTCAAAATATTT
Found at i:32702537 original size:15 final size:15
Alignment explanation
Indices: 32702519--32702562 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
32702509 TAAATTCACC
32702519 ACTTAAATTTTCAGT
1 ACTTAAATTTTCAGT
* * *
32702534 ACTTAATTTTTCCGC
1 ACTTAAATTTTCAGT
32702549 ACTT-AATTTTCAGT
1 ACTTAAATTTTCAGT
32702563 TTATCAAATA
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
14 7 0.30
15 16 0.70
ACGTcount: A:0.27, C:0.18, G:0.07, T:0.48
Consensus pattern (15 bp):
ACTTAAATTTTCAGT
Found at i:32707375 original size:6 final size:6
Alignment explanation
Indices: 32707364--32707394 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
32707354 TTAGATAATA
32707364 CGAATT CGAATT CGAATT CGAATT CGAATT C
1 CGAATT CGAATT CGAATT CGAATT CGAATT C
32707395 CATCATCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.32
Consensus pattern (6 bp):
CGAATT
Found at i:32709674 original size:80 final size:81
Alignment explanation
Indices: 32709558--32709724 Score: 318
Period size: 80 Copynumber: 2.1 Consensus size: 81
32709548 AATATTAATT
*
32709558 TTTAATAGTCTATATTTTTATAATTTTTAAATGATTAAATCAAATTTTTATAATTTTAGGGGGGC
1 TTTACTAGTCTATATTTTTATAATTTTTAAATGATTAAATCAAATTTTTATAATTTTAGGGGGGC
32709623 AAAGTATAATTTTAAC
66 AAAGTATAATTTTAAC
32709639 TTTACTAGTCTATA-TTTTATAATTTTTAAATGATTAAATCAAATTTTTATAATTTTAGGGGGGC
1 TTTACTAGTCTATATTTTTATAATTTTTAAATGATTAAATCAAATTTTTATAATTTTAGGGGGGC
32709703 AAAGTATAATTTTAAC
66 AAAGTATAATTTTAAC
32709719 TTTACT
1 TTTACT
32709725 TATTTAAAAT
Statistics
Matches: 85, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
80 72 0.85
81 13 0.15
ACGTcount: A:0.36, C:0.06, G:0.11, T:0.47
Consensus pattern (81 bp):
TTTACTAGTCTATATTTTTATAATTTTTAAATGATTAAATCAAATTTTTATAATTTTAGGGGGGC
AAAGTATAATTTTAAC
Found at i:32709749 original size:80 final size:80
Alignment explanation
Indices: 32709558--32709749 Score: 253
Period size: 80 Copynumber: 2.4 Consensus size: 80
32709548 AATATTAATT
* * ***
32709558 TTTAATAGTCTATATTTTTATAATTTTTAAATGATTAAATCAAATTTTTATAATTTTAGGGGGGC
1 TTTACTAGTCTA-AATTTTATAATGCCTAAATGATTAAATCAAATTTTTATAATTTTAGGGGGGC
32709623 AAAGTATAATTTTAAC
65 AAAGTATAATTTTAAC
* ***
32709639 TTTACTAGTCTATATTTTATAATTTTTAAATGATTAAATCAAATTTTTATAATTTTAGGGGGGCA
1 TTTACTAGTCTAAATTTTATAATGCCTAAATGATTAAATCAAATTTTTATAATTTTAGGGGGGCA
32709704 AAGTATAATTTTAAC
66 AAGTATAATTTTAAC
*
32709719 TTTACTTA-TTTAAAATTTTA-AATGCCTAAAT
1 TTTAC-TAGTCT-AAATTTTATAATGCCTAAAT
32709750 AACAATTTTT
Statistics
Matches: 101, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
80 81 0.80
81 20 0.20
ACGTcount: A:0.37, C:0.06, G:0.10, T:0.47
Consensus pattern (80 bp):
TTTACTAGTCTAAATTTTATAATGCCTAAATGATTAAATCAAATTTTTATAATTTTAGGGGGGCA
AAGTATAATTTTAAC
Found at i:32737164 original size:16 final size:15
Alignment explanation
Indices: 32737143--32737176 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
32737133 TTTTTATAAA
32737143 ATTTTTAAATATATTT
1 ATTTTTAAATA-ATTT
*
32737159 ATTTTTTAATAATTT
1 ATTTTTAAATAATTT
32737174 ATT
1 ATT
32737177 AGCTTTTGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (15 bp):
ATTTTTAAATAATTT
Found at i:32742044 original size:76 final size:78
Alignment explanation
Indices: 32741936--32742094 Score: 304
Period size: 76 Copynumber: 2.1 Consensus size: 78
32741926 AATAATCAAC
32741936 TGTTAGATGTCATATGCTATAATATTTTATTTTATTTGATTATTTATTTATTAATGTATTAATTA
1 TGTTAGATGTCATATGCTATAATATTTTATTTTATTTGATTATTTATTTATTAATGTATTAATTA
32742001 TAATTATGATTAG
66 TAATTATGATTAG
32742014 TGTTA-ATGTCATATG-TATAATATTTTATTTTATTTGATTATTTATTTATTAATGTATTAATTA
1 TGTTAGATGTCATATGCTATAATATTTTATTTTATTTGATTATTTATTTATTAATGTATTAATTA
32742077 TAATTATGATTAG
66 TAATTATGATTAG
32742090 TGTTA
1 TGTTA
32742095 CAATCACTTT
Statistics
Matches: 81, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
76 66 0.81
77 10 0.12
78 5 0.06
ACGTcount: A:0.32, C:0.02, G:0.10, T:0.56
Consensus pattern (78 bp):
TGTTAGATGTCATATGCTATAATATTTTATTTTATTTGATTATTTATTTATTAATGTATTAATTA
TAATTATGATTAG
Found at i:32752254 original size:33 final size:33
Alignment explanation
Indices: 32752208--32752281 Score: 96
Period size: 33 Copynumber: 2.3 Consensus size: 33
32752198 TCAAAAGAAC
* ** *
32752208 AAAT-TTTGTAAATGTTTTGTTAGCAGCTTTAG
1 AAATATTTGTAAATGATTCATTAGCAGCTCTAG
*
32752240 AAATATTTGTAAATGATTCATTAGTAGCTCTAG
1 AAATATTTGTAAATGATTCATTAGCAGCTCTAG
32752273 AAATATTTG
1 AAATATTTG
32752282 CCTTAATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
32 4 0.11
33 32 0.89
ACGTcount: A:0.34, C:0.07, G:0.16, T:0.43
Consensus pattern (33 bp):
AAATATTTGTAAATGATTCATTAGCAGCTCTAG
Found at i:32757165 original size:10 final size:9
Alignment explanation
Indices: 32757126--32757179 Score: 54
Period size: 10 Copynumber: 5.7 Consensus size: 9
32757116 ATTAAAATAT
32757126 TAAAAATTA
1 TAAAAATTA
* *
32757135 GGAAAAAATA
1 -TAAAAATTA
32757145 GTAAAAATTA
1 -TAAAAATTA
*
32757155 TAAAATTTTA
1 TAAAA-ATTA
32757165 TAAAAATTA
1 TAAAAATTA
32757174 TAAAAA
1 TAAAAA
32757180 AATTTTAAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
9 14 0.38
10 23 0.62
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.30
Consensus pattern (9 bp):
TAAAAATTA
Found at i:32757183 original size:30 final size:29
Alignment explanation
Indices: 32757147--32757217 Score: 81
Period size: 30 Copynumber: 2.4 Consensus size: 29
32757137 AAAAAATAGT
*
32757147 AAAAATTATAAAATTTTATAAAAAT-TATAA
1 AAAAATTATAAAA-TGTATAAAAATATA-AA
* *
32757177 AAAAATTTTAAAATGTATAGAAATATGAAA
1 AAAAATTATAAAATGTATAAAAATAT-AAA
32757207 AAAAATTATAA
1 AAAAATTATAA
32757218 NNNNNNNNNN
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
29 9 0.26
30 25 0.71
31 1 0.03
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.32
Consensus pattern (29 bp):
AAAAATTATAAAATGTATAAAAATATAAA
Found at i:32757188 original size:11 final size:11
Alignment explanation
Indices: 32757156--32757189 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
32757146 TAAAAATTAT
*
32757156 AAAATTTTATA
1 AAAATTTTAAA
*
32757167 AAAATTATAAA
1 AAAATTTTAAA
32757178 AAAATTTTAAA
1 AAAATTTTAAA
32757189 A
1 A
32757190 TGTATAGAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
AAAATTTTAAA
Found at i:32757189 original size:20 final size:19
Alignment explanation
Indices: 32757119--32757180 Score: 63
Period size: 20 Copynumber: 3.2 Consensus size: 19
32757109 TAAGAAAATT
*
32757119 AAAATATTAAAAATTAGGAA
1 AAAATATTAAAAATTA-TAA
*
32757139 AAAATAGTAAAAATTAT-A
1 AAAATATTAAAAATTATAA
* *
32757157 AAATTTTATAAAAATTATAA
1 AAAATAT-TAAAAATTATAA
32757177 AAAA
1 AAAA
32757181 ATTTTAAAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
18 5 0.15
19 10 0.29
20 19 0.56
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (19 bp):
AAAATATTAAAAATTATAA
Found at i:32757564 original size:90 final size:88
Alignment explanation
Indices: 32757389--32757563 Score: 208
Period size: 90 Copynumber: 2.0 Consensus size: 88
32757379 ATAAGAGCAG
* * * * *
32757389 GGGCTTAATTGCTTTTTTGAAGAATTTTGAGAGTCTTTTTGATGCATTTTGAAAGTTCAAGTACC
1 GGGCTTAATTGCTTTTTTGAAAAAGTTTGAAAGCCTTTTTGATGCATTTTAAAAGTTCAAGTACC
32757454 CAATTGAGTGCAACAAAAAAATAA
66 CAATTGAG-GCAACAAAAAAATAA
* * * * *
32757478 GGGCTTAATTGATTTTTTTGAAAAAGTTTGAAAGCCTTTTTTATGTATTTTAAAAGTTTAAGTGC
1 GGGCTTAATTG-CTTTTTTGAAAAAGTTTGAAAGCCTTTTTGATGCATTTTAAAAGTTCAAGTAC
* *
32757543 TCGATTGA-GCACACAAAAAAA
65 CCAATTGAGGCA-ACAAAAAAA
32757564 AGACTTAATT
Statistics
Matches: 72, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
88 3 0.04
89 20 0.28
90 49 0.68
ACGTcount: A:0.34, C:0.10, G:0.18, T:0.37
Consensus pattern (88 bp):
GGGCTTAATTGCTTTTTTGAAAAAGTTTGAAAGCCTTTTTGATGCATTTTAAAAGTTCAAGTACC
CAATTGAGGCAACAAAAAAATAA
Found at i:32757657 original size:22 final size:22
Alignment explanation
Indices: 32757632--32757680 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
32757622 AATATATATT
32757632 ATAAATTAAAAATATAT-TTAAA
1 ATAAATT-AAAATATATGTTAAA
*
32757654 AT-AATTGAAATATATGTTAAA
1 ATAAATTAAAATATATGTTAAA
*
32757675 TTAAAT
1 ATAAAT
32757681 CGATTTTTCG
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 8 0.35
21 10 0.43
22 5 0.22
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (22 bp):
ATAAATTAAAATATATGTTAAA
Found at i:32764871 original size:20 final size:21
Alignment explanation
Indices: 32764836--32764876 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
32764826 ACTCAATTGG
*
32764836 AACATAAATTGACATT-TTCA
1 AACATAAATGGACATTATTCA
*
32764856 AACATAAATGGCCATTATTCA
1 AACATAAATGGACATTATTCA
32764877 TTTAAATCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.44, C:0.17, G:0.07, T:0.32
Consensus pattern (21 bp):
AACATAAATGGACATTATTCA
Found at i:32765760 original size:24 final size:25
Alignment explanation
Indices: 32765710--32765761 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 25
32765700 TCTTTTTGAA
* * **
32765710 TTTTTAGAAAACTTTTTATGTTTAT
1 TTTTTAGAAAAATTTTGATGTGCAT
32765735 TTTTTA-AAAAATTTTGATGTGCAT
1 TTTTTAGAAAAATTTTGATGTGCAT
32765759 TTT
1 TTT
32765762 CCATTGTTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 17 0.74
25 6 0.26
ACGTcount: A:0.29, C:0.04, G:0.10, T:0.58
Consensus pattern (25 bp):
TTTTTAGAAAAATTTTGATGTGCAT
Found at i:32771482 original size:25 final size:26
Alignment explanation
Indices: 32771435--32771484 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
32771425 TAATGGAGTA
32771435 AAATGTTTTAAATAAAATAATTTAAT
1 AAATGTTTTAAATAAAATAATTTAAT
* * *
32771461 AAATTTTTTTAATAAAGT-ATTTAA
1 AAATGTTTTAAATAAAATAATTTAA
32771485 CTATCTGTGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 6 0.29
26 15 0.71
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (26 bp):
AAATGTTTTAAATAAAATAATTTAAT
Found at i:32771552 original size:5 final size:6
Alignment explanation
Indices: 32771537--32771561 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
32771527 CAAAAGTAAC
32771537 AAAAAG AAAAAG AAAAAG AAAAAG A
1 AAAAAG AAAAAG AAAAAG AAAAAG A
32771562 GAATGCTACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:32775632 original size:14 final size:14
Alignment explanation
Indices: 32775613--32775642 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
32775603 CTCCCTAATT
*
32775613 TTCAGATTTAATAA
1 TTCAGATCTAATAA
32775627 TTCAGATCTAATAA
1 TTCAGATCTAATAA
32775641 TT
1 TT
32775643 AACATCATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.10, G:0.07, T:0.43
Consensus pattern (14 bp):
TTCAGATCTAATAA
Found at i:32776279 original size:15 final size:16
Alignment explanation
Indices: 32776259--32776290 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
32776249 ATAACAATTG
32776259 AATTGT-TAAAATATT
1 AATTGTATAAAATATT
32776274 AATTGTATAAAATATT
1 AATTGTATAAAATATT
32776290 A
1 A
32776291 CAAAATTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (16 bp):
AATTGTATAAAATATT
Found at i:32776843 original size:25 final size:26
Alignment explanation
Indices: 32776796--32776845 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
32776786 TAATGGAGTA
32776796 AAATGTTTTAAATAAAATAATTTAAT
1 AAATGTTTTAAATAAAATAATTTAAT
* * *
32776822 AAATTTTTTTAATAAAGT-ATTTAA
1 AAATGTTTTAAATAAAATAATTTAA
32776846 CTATCTGTGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 6 0.29
26 15 0.71
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (26 bp):
AAATGTTTTAAATAAAATAATTTAAT
Found at i:32778318 original size:63 final size:62
Alignment explanation
Indices: 32778180--32778319 Score: 151
Period size: 62 Copynumber: 2.2 Consensus size: 62
32778170 TGCAGGGTTC
* *
32778180 ACACGGGCGTGTGTCTAGGTCATGTGACCCATTGTTGCTATTAGGAACCACACGGGCCAAAA
1 ACACGGGCGTGTGTCCAGGTCATGTGACCCACTGTTGCTATTAGGAACCACACGGGCCAAAA
* * * * * *
32778242 ATACGTGCATGTGTCCAGGTCGTGTGACTCACTGTTTG-TGATTTA-GAACCACACTGG-CAAAC
1 ACACGGGCGTGTGTCCAGGTCATGTGACCCACTG-TTGCT-A-TTAGGAACCACACGGGCCAAA-
32778304 A
62 A
32778305 ACACGGGCGTGTGTC
1 ACACGGGCGTGTGTC
32778320 AAGCCGTGTG
Statistics
Matches: 63, Mismatches: 11, Indels: 7
0.78 0.14 0.09
Matches are distributed among these distances:
62 32 0.51
63 28 0.44
64 3 0.05
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (62 bp):
ACACGGGCGTGTGTCCAGGTCATGTGACCCACTGTTGCTATTAGGAACCACACGGGCCAAAA
Found at i:32784227 original size:33 final size:33
Alignment explanation
Indices: 32784160--32784229 Score: 81
Period size: 33 Copynumber: 2.1 Consensus size: 33
32784150 ACTTGGTAGC
* * *
32784160 TTATAAATCCAAATTTAATTAGGTTTTTTCTTT
1 TTATAAATCCAAACTTAATTAGCTTTATTCTTT
32784193 TTATAAATCCAAACTT-ATTAGCTTGGTATT-TTT
1 TTATAAATCCAAACTTAATTAGCTT--TATTCTTT
32784226 TTAT
1 TTAT
32784230 GTCTGTTTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
32 7 0.22
33 22 0.69
34 3 0.09
ACGTcount: A:0.30, C:0.10, G:0.07, T:0.53
Consensus pattern (33 bp):
TTATAAATCCAAACTTAATTAGCTTTATTCTTT
Found at i:32792803 original size:958 final size:958
Alignment explanation
Indices: 32790948--32792864 Score: 3834
Period size: 958 Copynumber: 2.0 Consensus size: 958
32790938 AAAATTAGGC
32790948 AATCCTTTTACTTTTCTGTTTGTTTCCCAAATTACTAGCCTCAAAGTTAGTTACTTTGGTTTCCT
1 AATCCTTTTACTTTTCTGTTTGTTTCCCAAATTACTAGCCTCAAAGTTAGTTACTTTGGTTTCCT
32791013 AATCCTATCTATGGTAAGTTATAAGCTTTACAATTAATGATCTATTAGTTTACTGAGGAAGATTA
66 AATCCTATCTATGGTAAGTTATAAGCTTTACAATTAATGATCTATTAGTTTACTGAGGAAGATTA
32791078 GGCAAGTTTGTCAGTGAGAAGTCGTAAGATTTGACATAGCTTTTAATTCTGTTTCCATTTTTCTG
131 GGCAAGTTTGTCAGTGAGAAGTCGTAAGATTTGACATAGCTTTTAATTCTGTTTCCATTTTTCTG
32791143 ATTTGGTGGATAATTGGGCAGGCTGATGGATGGATGGTGGAGATGATAAGCTTATTGGCAAATCC
196 ATTTGGTGGATAATTGGGCAGGCTGATGGATGGATGGTGGAGATGATAAGCTTATTGGCAAATCC
32791208 GAATCAAGTTCGGCCGAAGAGATTTTGGGGTGTTTACACCAAATTGAAAATTTTTAATATGACTA
261 GAATCAAGTTCGGCCGAAGAGATTTTGGGGTGTTTACACCAAATTGAAAATTTTTAATATGACTA
32791273 ACTACAAGAAAGGTAAACCCTTTTCTGTTTGTTTATGGTTCATCTTTGTTGGATATAGAAAATGC
326 ACTACAAGAAAGGTAAACCCTTTTCTGTTTGTTTATGGTTCATCTTTGTTGGATATAGAAAATGC
32791338 ATGGTTTAGCTTAAGGATGGATGTAGTTGGTTTAGCTTCAATTTGATGTACCCTCAGTGCAAAAC
391 ATGGTTTAGCTTAAGGATGGATGTAGTTGGTTTAGCTTCAATTTGATGTACCCTCAGTGCAAAAC
32791403 TTATACACTATCAATGACCATATCATAATGAAAATATTTAAAATTATGAAGTTTATGAAACTAAG
456 TTATACACTATCAATGACCATATCATAATGAAAATATTTAAAATTATGAAGTTTATGAAACTAAG
32791468 TATGGTTAAGTTTTTACGCCTGTTTAAAAGTTTGCTTGTAATTAGGTTACAGCTTGGAGTTTGCC
521 TATGGTTAAGTTTTTACGCCTGTTTAAAAGTTTGCTTGTAATTAGGTTACAGCTTGGAGTTTGCC
32791533 AATCCGTTGTTCTTTCTATCTCAATGTTTCTTCTGGTGGATTGCATTGTTTCACACTTGGAATTT
586 AATCCGTTGTTCTTTCTATCTCAATGTTTCTTCTGGTGGATTGCATTGTTTCACACTTGGAATTT
32791598 GCTTTTGTAGTTGTGTATCTTGATGCGGATACTATAGTAGTCAAGAGCATTGAAGATCTCTTTAA
651 GCTTTTGTAGTTGTGTATCTTGATGCGGATACTATAGTAGTCAAGAGCATTGAAGATCTCTTTAA
32791663 ATGTCAGAAATTTTGTGCAAATTTGAAGCATTCTGAGAGGTTGAATTCAGGAGTCATGGTAGTGG
716 ATGTCAGAAATTTTGTGCAAATTTGAAGCATTCTGAGAGGTTGAATTCAGGAGTCATGGTAGTGG
32791728 AACCATCTGAAGCTGTTTTCAATGACATGATGAGCAAAGTCAATACTTTGCCTTCTTATACTGGA
781 AACCATCTGAAGCTGTTTTCAATGACATGATGAGCAAAGTCAATACTTTGCCTTCTTATACTGGA
32791793 GGAGATCAGGGTTTTCTGAATTCTTACTACTCTGATTTCCCAAATGCACATGTTTTTGACCCTAA
846 GGAGATCAGGGTTTTCTGAATTCTTACTACTCTGATTTCCCAAATGCACATGTTTTTGACCCTAA
32791858 TATACCCGAGGAGGTGCTGAAATCCCGTCCTGCTCCTGAGATGGAACG
911 TATACCCGAGGAGGTGCTGAAATCCCGTCCTGCTCCTGAGATGGAACG
32791906 AATCCTTTTACTTTTCTGTTTGTTTCCCAAATTACTAGCCTCAAAGTTAGTTACTTTGGTTTCCT
1 AATCCTTTTACTTTTCTGTTTGTTTCCCAAATTACTAGCCTCAAAGTTAGTTACTTTGGTTTCCT
32791971 AATCCTATCTATGGTAAGTTATAAGCTTTACAATTAATGATCTATTAGTTTACTGAGGAAGATTA
66 AATCCTATCTATGGTAAGTTATAAGCTTTACAATTAATGATCTATTAGTTTACTGAGGAAGATTA
32792036 GGCAAGTTTGTCAGTGAGAAGTCGTAAGATTTGACATAGCTTTTAATTCTGTTTCCATTTTTCTG
131 GGCAAGTTTGTCAGTGAGAAGTCGTAAGATTTGACATAGCTTTTAATTCTGTTTCCATTTTTCTG
32792101 ATTTGGTGGATAATTGGGCAGGCTGATGGATGGATGGTGGAGATGATAAGCTTATTGGCAAATCC
196 ATTTGGTGGATAATTGGGCAGGCTGATGGATGGATGGTGGAGATGATAAGCTTATTGGCAAATCC
32792166 GAATCAAGTTCGGCCGAAGAGATTTTGGGGTGTTTACACCAAATTGAAAATTTTTAATATGACTA
261 GAATCAAGTTCGGCCGAAGAGATTTTGGGGTGTTTACACCAAATTGAAAATTTTTAATATGACTA
32792231 ACTACAAGAAAGGTAAACCCTTTTCTGTTTGTTTATGGTTCATCTTTGTTGGATATAGAAAATGC
326 ACTACAAGAAAGGTAAACCCTTTTCTGTTTGTTTATGGTTCATCTTTGTTGGATATAGAAAATGC
32792296 ATGGTTTAGCTTAAGGATGGATGTAGTTGGTTTAGCTTCAATTTGATGTACCCTCAGTGCAAAAC
391 ATGGTTTAGCTTAAGGATGGATGTAGTTGGTTTAGCTTCAATTTGATGTACCCTCAGTGCAAAAC
32792361 TTATACACTATCAATGACCATATCATAATGAAAATATTTAAAATTATGAAGTTTATGAAACTAAG
456 TTATACACTATCAATGACCATATCATAATGAAAATATTTAAAATTATGAAGTTTATGAAACTAAG
32792426 TATGGTTAAGTTTTTACGCCTGTTTAAAAGTTTGCTTGTAATTAGGTTACAGCTTGGAGTTTGCC
521 TATGGTTAAGTTTTTACGCCTGTTTAAAAGTTTGCTTGTAATTAGGTTACAGCTTGGAGTTTGCC
32792491 AATCCGTTGTTCTTTCTATCTCAATGTTTCTTCTGGTGGATTGCATTGTTTCACACTTGGAATTT
586 AATCCGTTGTTCTTTCTATCTCAATGTTTCTTCTGGTGGATTGCATTGTTTCACACTTGGAATTT
32792556 GCTTTTGTAGTTGTGTATCTTGATGCGGATACTATAGTAGTCAAGAGCATTGAAGATCTCTTTAA
651 GCTTTTGTAGTTGTGTATCTTGATGCGGATACTATAGTAGTCAAGAGCATTGAAGATCTCTTTAA
32792621 ATGTCAGAAATTTTGTGCAAATTTGAAGCATTCTGAGAGGTTGAATTCAGGAGTCATGGTAGTGG
716 ATGTCAGAAATTTTGTGCAAATTTGAAGCATTCTGAGAGGTTGAATTCAGGAGTCATGGTAGTGG
32792686 AACCATCTGAAGCTGTTTTCAATGACATGATGAGCAAAGTCAATACTTTGCCTTCTTATACTGGA
781 AACCATCTGAAGCTGTTTTCAATGACATGATGAGCAAAGTCAATACTTTGCCTTCTTATACTGGA
32792751 GGAGATCAGGGTTTTCTGAATTCTTACTACTCTGATTTCCCAAATGCACATGTTTTTGACCCTAA
846 GGAGATCAGGGTTTTCTGAATTCTTACTACTCTGATTTCCCAAATGCACATGTTTTTGACCCTAA
32792816 TATACCCGAGGAGGTGCTGAAATCCCGTCCTGCTCCTGAGATGGAACG
911 TATACCCGAGGAGGTGCTGAAATCCCGTCCTGCTCCTGAGATGGAACG
32792864 A
1 A
32792865 CTCTCTACTC
Statistics
Matches: 959, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
958 959 1.00
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.37
Consensus pattern (958 bp):
AATCCTTTTACTTTTCTGTTTGTTTCCCAAATTACTAGCCTCAAAGTTAGTTACTTTGGTTTCCT
AATCCTATCTATGGTAAGTTATAAGCTTTACAATTAATGATCTATTAGTTTACTGAGGAAGATTA
GGCAAGTTTGTCAGTGAGAAGTCGTAAGATTTGACATAGCTTTTAATTCTGTTTCCATTTTTCTG
ATTTGGTGGATAATTGGGCAGGCTGATGGATGGATGGTGGAGATGATAAGCTTATTGGCAAATCC
GAATCAAGTTCGGCCGAAGAGATTTTGGGGTGTTTACACCAAATTGAAAATTTTTAATATGACTA
ACTACAAGAAAGGTAAACCCTTTTCTGTTTGTTTATGGTTCATCTTTGTTGGATATAGAAAATGC
ATGGTTTAGCTTAAGGATGGATGTAGTTGGTTTAGCTTCAATTTGATGTACCCTCAGTGCAAAAC
TTATACACTATCAATGACCATATCATAATGAAAATATTTAAAATTATGAAGTTTATGAAACTAAG
TATGGTTAAGTTTTTACGCCTGTTTAAAAGTTTGCTTGTAATTAGGTTACAGCTTGGAGTTTGCC
AATCCGTTGTTCTTTCTATCTCAATGTTTCTTCTGGTGGATTGCATTGTTTCACACTTGGAATTT
GCTTTTGTAGTTGTGTATCTTGATGCGGATACTATAGTAGTCAAGAGCATTGAAGATCTCTTTAA
ATGTCAGAAATTTTGTGCAAATTTGAAGCATTCTGAGAGGTTGAATTCAGGAGTCATGGTAGTGG
AACCATCTGAAGCTGTTTTCAATGACATGATGAGCAAAGTCAATACTTTGCCTTCTTATACTGGA
GGAGATCAGGGTTTTCTGAATTCTTACTACTCTGATTTCCCAAATGCACATGTTTTTGACCCTAA
TATACCCGAGGAGGTGCTGAAATCCCGTCCTGCTCCTGAGATGGAACG
Found at i:32797866 original size:6 final size:6
Alignment explanation
Indices: 32797857--32797881 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
32797847 ATTTAAATTC
32797857 ATATTA ATATTA ATATTA ATATTA A
1 ATATTA ATATTA ATATTA ATATTA A
32797882 ATAAAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
ATATTA
Found at i:32800855 original size:3 final size:3
Alignment explanation
Indices: 32800847--32801409 Score: 1126
Period size: 3 Copynumber: 187.7 Consensus size: 3
32800837 AAATTAGTTA
32800847 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
32800895 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
32800943 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
32800991 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
32801039 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
32801087 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
32801135 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
32801183 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
32801231 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
32801279 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
32801327 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
32801375 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
32801410 AAGGATAGTA
Statistics
Matches: 560, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 560 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:32802830 original size:31 final size:32
Alignment explanation
Indices: 32802792--32802854 Score: 119
Period size: 31 Copynumber: 2.0 Consensus size: 32
32802782 AGGCAAATTA
32802792 CAAGAGTAATTGAATCCTAAT-AAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAAACTCTTT
32802823 CAAGAGTAATTGAATCCTAATAAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAAACTCTTT
32802855 AAAATTATCT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 21 0.68
32 10 0.32
ACGTcount: A:0.43, C:0.16, G:0.10, T:0.32
Consensus pattern (32 bp):
CAAGAGTAATTGAATCCTAATAAAAACTCTTT
Found at i:32805489 original size:31 final size:32
Alignment explanation
Indices: 32805451--32805512 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 32
32805441 GGCAAATTAA
32805451 AAGAGTAATTGAATCCTAAT-AAAACTCTTTC
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTC
32805482 AAGAGTAATTGAATCCTAATAAAAACTCTTT
1 AAGAGTAATTGAATCCTAATAAAAACTCTTT
32805513 AAAATTATCT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 20 0.67
32 10 0.33
ACGTcount: A:0.44, C:0.15, G:0.10, T:0.32
Consensus pattern (32 bp):
AAGAGTAATTGAATCCTAATAAAAACTCTTTC
Found at i:32810832 original size:13 final size:11
Alignment explanation
Indices: 32810800--32810842 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
32810790 CCGTTTTTTA
*
32810800 AATAAAATAAT
1 AATAAAATATT
32810811 AAT-AAATATCT
1 AATAAAATAT-T
32810822 AAGTAAAATATT
1 AA-TAAAATATT
32810834 AATAAAATA
1 AATAAAATA
32810843 ATATTTAACT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
10 5 0.18
11 13 0.46
12 4 0.14
13 6 0.21
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (11 bp):
AATAAAATATT
Found at i:32825753 original size:27 final size:26
Alignment explanation
Indices: 32825697--32825781 Score: 118
Period size: 27 Copynumber: 3.2 Consensus size: 26
32825687 ATCTAGAAGG
*
32825697 CAATGGTGGTGCC-ATTTGGGAGGCGC
1 CAATGGTGGTGCCTA-TTAGGAGGCGC
32825723 CAATGGTGGTGCCTATCTAGGAGGCGC
1 CAATGGTGGTGCCTAT-TAGGAGGCGC
*
32825750 CAATGGTGGTGCCATATTAGAAGGCGC
1 CAATGGTGGTGCC-TATTAGGAGGCGC
32825777 CAATG
1 CAATG
32825782 CTGTGATTTT
Statistics
Matches: 54, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
26 14 0.26
27 37 0.69
28 3 0.06
ACGTcount: A:0.21, C:0.20, G:0.36, T:0.22
Consensus pattern (26 bp):
CAATGGTGGTGCCTATTAGGAGGCGC
Found at i:32825885 original size:18 final size:20
Alignment explanation
Indices: 32825843--32825889 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 20
32825833 AAAACGGAAG
32825843 AAAGAAGAAGGAAGGAAGCA
1 AAAGAAGAAGGAAGGAAGCA
* *
32825863 GAAGAA-AA-GAAGGAAGGA
1 AAAGAAGAAGGAAGGAAGCA
32825881 AAAGAAGAA
1 AAAGAAGAA
32825890 AAAAGTTAGG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
18 14 0.61
19 4 0.17
20 5 0.22
ACGTcount: A:0.64, C:0.02, G:0.34, T:0.00
Consensus pattern (20 bp):
AAAGAAGAAGGAAGGAAGCA
Found at i:32825892 original size:22 final size:23
Alignment explanation
Indices: 32825839--32825892 Score: 76
Period size: 22 Copynumber: 2.4 Consensus size: 23
32825829 TACAAAAACG
*
32825839 GAAGAAAGAAGAAGGAAGGAAGCA
1 GAAGAAA-AAGAAGGAAGGAAGAA
32825863 GAAG-AAAAGAAGGAAGGAA-AA
1 GAAGAAAAAGAAGGAAGGAAGAA
32825884 GAAGAAAAA
1 GAAGAAAAA
32825893 AGTTAGGTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 5 0.18
22 17 0.61
23 2 0.07
24 4 0.14
ACGTcount: A:0.65, C:0.02, G:0.33, T:0.00
Consensus pattern (23 bp):
GAAGAAAAAGAAGGAAGGAAGAA
Done.